ERS527250 SAMEA2699516 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:58Z External Id SAMEA2699516 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:58Z INSDC status public Submitter Id E-MTAB-2805:S_cell27 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell27 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527248 SAMEA2699514 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:58Z External Id SAMEA2699514 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:58Z INSDC status public Submitter Id E-MTAB-2805:S_cell13 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell13 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527246 SAMEA2699512 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:57Z External Id SAMEA2699512 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:57Z INSDC status public Submitter Id E-MTAB-2805:G1_cell66 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell66 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527244 SAMEA2699510 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:57Z External Id SAMEA2699510 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:57Z INSDC status public Submitter Id E-MTAB-2805:S_cell20 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell20 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527243 SAMEA2699509 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:57Z External Id SAMEA2699509 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:57Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell44 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell44 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527242 SAMEA2699508 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:57Z External Id SAMEA2699508 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:57Z INSDC status public Submitter Id E-MTAB-2805:G1_cell40 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell40 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527241 SAMEA2699507 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:57Z External Id SAMEA2699507 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:57Z INSDC status public Submitter Id E-MTAB-2805:G1_cell14 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell14 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527240 SAMEA2699506 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:57Z External Id SAMEA2699506 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:57Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell66 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell66 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527239 SAMEA2699505 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:57Z External Id SAMEA2699505 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:57Z INSDC status public Submitter Id E-MTAB-2805:S_cell89 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell89 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527238 SAMEA2699504 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:57Z External Id SAMEA2699504 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:57Z INSDC status public Submitter Id E-MTAB-2805:S_cell65 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell65 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527237 SAMEA2699503 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:57Z External Id SAMEA2699503 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:57Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell1 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell1 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527236 SAMEA2699502 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:57Z External Id SAMEA2699502 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:57Z INSDC status public Submitter Id E-MTAB-2805:S_cell80 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell80 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527260 SAMEA2699526 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:59Z External Id SAMEA2699526 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:59Z INSDC status public Submitter Id E-MTAB-2805:G1_cell23 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell23 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527259 SAMEA2699525 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:58Z External Id SAMEA2699525 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:58Z INSDC status public Submitter Id E-MTAB-2805:S_cell69 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell69 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527258 SAMEA2699524 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:58Z External Id SAMEA2699524 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:58Z INSDC status public Submitter Id E-MTAB-2805:G1_cell8 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell8 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527257 SAMEA2699523 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:58Z External Id SAMEA2699523 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:58Z INSDC status public Submitter Id E-MTAB-2805:S_cell96 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell96 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527256 SAMEA2699522 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:58Z External Id SAMEA2699522 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:58Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell21 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell21 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527255 SAMEA2699521 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:58Z External Id SAMEA2699521 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:58Z INSDC status public Submitter Id E-MTAB-2805:G1_cell76 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell76 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527254 SAMEA2699520 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:58Z External Id SAMEA2699520 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:58Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell91 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell91 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527253 SAMEA2699519 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:58Z External Id SAMEA2699519 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:58Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell26 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell26 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527252 SAMEA2699518 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:58Z External Id SAMEA2699518 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:58Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell17 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell17 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527251 SAMEA2699517 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:58Z External Id SAMEA2699517 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:58Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell54 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell54 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527261 SAMEA2699527 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:59Z External Id SAMEA2699527 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:59Z INSDC status public Submitter Id E-MTAB-2805:G1_cell94 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell94 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527249 SAMEA2699515 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:58Z External Id SAMEA2699515 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:58Z INSDC status public Submitter Id E-MTAB-2805:G1_cell88 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell88 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527262 SAMEA2699528 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:59Z External Id SAMEA2699528 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:59Z INSDC status public Submitter Id E-MTAB-2805:G1_cell45 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell45 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527247 SAMEA2699513 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:58Z External Id SAMEA2699513 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:58Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell4 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell4 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527263 SAMEA2699529 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:59Z External Id SAMEA2699529 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:59Z INSDC status public Submitter Id E-MTAB-2805:S_cell47 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell47 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527245 SAMEA2699511 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:57Z External Id SAMEA2699511 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:57Z INSDC status public Submitter Id E-MTAB-2805:G1_cell37 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell37 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527264 SAMEA2699530 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:07Z External Id SAMEA2699530 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:07Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell93 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell93 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527265 SAMEA2699531 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:07Z External Id SAMEA2699531 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:07Z INSDC status public Submitter Id E-MTAB-2805:G1_cell77 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell77 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527266 SAMEA2699532 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:07Z External Id SAMEA2699532 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:07Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell73 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell73 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527267 SAMEA2699533 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:07Z External Id SAMEA2699533 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:07Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell8 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell8 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527268 SAMEA2699534 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:07Z External Id SAMEA2699534 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:07Z INSDC status public Submitter Id E-MTAB-2805:G1_cell17 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell17 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527269 SAMEA2699535 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:07Z External Id SAMEA2699535 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:07Z INSDC status public Submitter Id E-MTAB-2805:S_cell18 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell18 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527270 SAMEA2699536 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:07Z External Id SAMEA2699536 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:07Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell40 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell40 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527271 SAMEA2699537 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:16Z External Id SAMEA2699537 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:16Z INSDC status public Submitter Id E-MTAB-2805:S_cell71 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell71 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527273 SAMEA2699539 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:16Z External Id SAMEA2699539 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:16Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell65 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell65 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527274 SAMEA2699540 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:16Z External Id SAMEA2699540 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:16Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell38 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell38 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527275 SAMEA2699541 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:16Z External Id SAMEA2699541 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:16Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell13 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell13 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527276 SAMEA2699542 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:16Z External Id SAMEA2699542 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:16Z INSDC status public Submitter Id E-MTAB-2805:G1_cell55 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell55 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527277 SAMEA2699543 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:16Z External Id SAMEA2699543 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:16Z INSDC status public Submitter Id E-MTAB-2805:S_cell58 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell58 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527278 SAMEA2699544 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:07Z External Id SAMEA2699544 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:07Z INSDC status public Submitter Id E-MTAB-2805:S_cell86 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell86 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527279 SAMEA2699545 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:07Z External Id SAMEA2699545 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:07Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell58 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell58 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527280 SAMEA2699546 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:07Z External Id SAMEA2699546 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:07Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell82 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell82 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527281 SAMEA2699547 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:07Z External Id SAMEA2699547 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:07Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell53 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell53 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527282 SAMEA2699548 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699548 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:G1_cell2 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell2 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527283 SAMEA2699549 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699549 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:G1_cell27 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell27 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527284 SAMEA2699550 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699550 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell48 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell48 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527285 SAMEA2699551 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:04Z External Id SAMEA2699551 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:04Z INSDC status public Submitter Id E-MTAB-2805:S_cell38 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell38 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527286 SAMEA2699552 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:04Z External Id SAMEA2699552 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:04Z INSDC status public Submitter Id E-MTAB-2805:S_cell74 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell74 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527287 SAMEA2699553 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:04Z External Id SAMEA2699553 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:04Z INSDC status public Submitter Id E-MTAB-2805:G1_cell54 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell54 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527288 SAMEA2699554 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:04Z External Id SAMEA2699554 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:04Z INSDC status public Submitter Id E-MTAB-2805:G1_cell49 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell49 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527289 SAMEA2699555 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:04Z External Id SAMEA2699555 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:04Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell33 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell33 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527290 SAMEA2699556 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:05Z External Id SAMEA2699556 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:05Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell88 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell88 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527291 SAMEA2699557 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:16Z External Id SAMEA2699557 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:16Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell62 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell62 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527292 SAMEA2699558 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:16Z External Id SAMEA2699558 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:16Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell22 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell22 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527293 SAMEA2699559 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:16Z External Id SAMEA2699559 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:16Z INSDC status public Submitter Id E-MTAB-2805:G1_cell50 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell50 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527294 SAMEA2699560 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:16Z External Id SAMEA2699560 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:16Z INSDC status public Submitter Id E-MTAB-2805:G1_cell63 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell63 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527295 SAMEA2699561 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:16Z External Id SAMEA2699561 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:16Z INSDC status public Submitter Id E-MTAB-2805:G1_cell61 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell61 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527272 SAMEA2699538 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:16Z External Id SAMEA2699538 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:16Z INSDC status public Submitter Id E-MTAB-2805:G1_cell85 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell85 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527297 SAMEA2699563 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:17Z External Id SAMEA2699563 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:17Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell75 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell75 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527296 SAMEA2699562 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:17Z External Id SAMEA2699562 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:17Z INSDC status public Submitter Id E-MTAB-2805:S_cell5 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell5 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527298 SAMEA2699564 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699564 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:S_cell90 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell90 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527299 SAMEA2699565 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699565 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:G1_cell59 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell59 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527300 SAMEA2699566 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699566 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:S_cell60 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell60 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527301 SAMEA2699567 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699567 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:G1_cell67 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell67 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527302 SAMEA2699568 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699568 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:G1_cell33 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell33 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527303 SAMEA2699569 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699569 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:S_cell53 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell53 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527304 SAMEA2699570 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699570 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:S_cell81 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell81 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527305 SAMEA2699571 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:05Z External Id SAMEA2699571 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:05Z INSDC status public Submitter Id E-MTAB-2805:G1_cell75 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell75 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527306 SAMEA2699572 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:05Z External Id SAMEA2699572 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:05Z INSDC status public Submitter Id E-MTAB-2805:S_cell4 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell4 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527307 SAMEA2699573 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:05Z External Id SAMEA2699573 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:05Z INSDC status public Submitter Id E-MTAB-2805:S_cell72 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell72 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527308 SAMEA2699574 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:05Z External Id SAMEA2699574 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:05Z INSDC status public Submitter Id E-MTAB-2805:S_cell23 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell23 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527309 SAMEA2699575 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:05Z External Id SAMEA2699575 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:05Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell43 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell43 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527310 SAMEA2699576 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:05Z External Id SAMEA2699576 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:05Z INSDC status public Submitter Id E-MTAB-2805:G1_cell47 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell47 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527311 SAMEA2699577 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:06Z External Id SAMEA2699577 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:06Z INSDC status public Submitter Id E-MTAB-2805:G1_cell9 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell9 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527312 SAMEA2699578 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:17Z External Id SAMEA2699578 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:17Z INSDC status public Submitter Id E-MTAB-2805:S_cell66 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell66 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527313 SAMEA2699579 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:17Z External Id SAMEA2699579 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:17Z INSDC status public Submitter Id E-MTAB-2805:S_cell59 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell59 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527314 SAMEA2699580 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:17Z External Id SAMEA2699580 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:17Z INSDC status public Submitter Id E-MTAB-2805:S_cell57 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell57 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527315 SAMEA2699581 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:17Z External Id SAMEA2699581 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:17Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell2 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell2 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527316 SAMEA2699582 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:17Z External Id SAMEA2699582 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:17Z INSDC status public Submitter Id E-MTAB-2805:S_cell48 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell48 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527317 SAMEA2699583 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:17Z External Id SAMEA2699583 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:17Z INSDC status public Submitter Id E-MTAB-2805:G1_cell15 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell15 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527318 SAMEA2699584 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:55:17Z External Id SAMEA2699584 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:55:17Z INSDC status public Submitter Id E-MTAB-2805:S_cell84 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell84 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527319 SAMEA2699585 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699585 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:G1_cell89 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell89 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527320 SAMEA2699586 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699586 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell61 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell61 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527321 SAMEA2699587 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699587 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:G1_cell43 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell43 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527322 SAMEA2699588 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699588 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell3 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell3 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527323 SAMEA2699589 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699589 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:S_cell12 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell12 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527324 SAMEA2699590 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699590 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:G1_cell44 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell44 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527325 SAMEA2699591 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699591 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell20 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell20 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527326 SAMEA2699592 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:06Z External Id SAMEA2699592 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:06Z INSDC status public Submitter Id E-MTAB-2805:G1_cell93 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell93 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527327 SAMEA2699593 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:06Z External Id SAMEA2699593 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:06Z INSDC status public Submitter Id E-MTAB-2805:G1_cell30 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell30 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527328 SAMEA2699594 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:06Z External Id SAMEA2699594 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:06Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell27 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell27 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527329 SAMEA2699595 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:06Z External Id SAMEA2699595 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:06Z INSDC status public Submitter Id E-MTAB-2805:G1_cell53 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell53 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527330 SAMEA2699596 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:06Z External Id SAMEA2699596 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:06Z INSDC status public Submitter Id E-MTAB-2805:S_cell14 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell14 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527331 SAMEA2699597 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:07Z External Id SAMEA2699597 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:07Z INSDC status public Submitter Id E-MTAB-2805:G1_cell22 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell22 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527332 SAMEA2699598 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:07Z External Id SAMEA2699598 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:07Z INSDC status public Submitter Id E-MTAB-2805:S_cell73 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell73 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527333 SAMEA2699599 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699599 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:S_cell1 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell1 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527334 SAMEA2699600 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:45:02Z External Id SAMEA2699600 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:45:02Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell50 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell50 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527335 SAMEA2699601 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:45:02Z External Id SAMEA2699601 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:45:02Z INSDC status public Submitter Id E-MTAB-2805:S_cell28 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell28 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527336 SAMEA2699602 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:45:02Z External Id SAMEA2699602 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:45:02Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell57 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell57 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527337 SAMEA2699603 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:45:02Z External Id SAMEA2699603 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:45:02Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell92 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell92 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527338 SAMEA2699604 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:45:03Z External Id SAMEA2699604 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:45:03Z INSDC status public Submitter Id E-MTAB-2805:S_cell30 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell30 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527339 SAMEA2699605 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:45:03Z External Id SAMEA2699605 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:45:03Z INSDC status public Submitter Id E-MTAB-2805:G1_cell86 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell86 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527340 SAMEA2699606 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:45:03Z External Id SAMEA2699606 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:45:03Z INSDC status public Submitter Id E-MTAB-2805:G1_cell72 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell72 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527341 SAMEA2699607 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:45:03Z External Id SAMEA2699607 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:45:03Z INSDC status public Submitter Id E-MTAB-2805:G1_cell29 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell29 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527342 SAMEA2699608 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:45:03Z External Id SAMEA2699608 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:45:03Z INSDC status public Submitter Id E-MTAB-2805:G1_cell18 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell18 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527343 SAMEA2699609 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:45:03Z External Id SAMEA2699609 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:45:03Z INSDC status public Submitter Id E-MTAB-2805:S_cell42 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell42 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527344 SAMEA2699610 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:45:03Z External Id SAMEA2699610 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:45:03Z INSDC status public Submitter Id E-MTAB-2805:G1_cell38 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell38 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527345 SAMEA2699611 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:45:03Z External Id SAMEA2699611 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:45:03Z INSDC status public Submitter Id E-MTAB-2805:S_cell88 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell88 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527346 SAMEA2699612 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:45:03Z External Id SAMEA2699612 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:45:03Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell32 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell32 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527347 SAMEA2699613 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:45:03Z External Id SAMEA2699613 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:45:03Z INSDC status public Submitter Id E-MTAB-2805:G1_cell64 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell64 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527348 SAMEA2699614 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:07Z External Id SAMEA2699614 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:07Z INSDC status public Submitter Id E-MTAB-2805:S_cell9 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell9 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527349 SAMEA2699615 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:07Z External Id SAMEA2699615 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:07Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell46 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell46 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527350 SAMEA2699616 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:07Z External Id SAMEA2699616 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:07Z INSDC status public Submitter Id E-MTAB-2805:G1_cell11 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell11 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527351 SAMEA2699617 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:07Z External Id SAMEA2699617 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:07Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell7 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell7 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527352 SAMEA2699618 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:07Z External Id SAMEA2699618 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:07Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell37 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell37 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527353 SAMEA2699619 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:08Z External Id SAMEA2699619 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:08Z INSDC status public Submitter Id E-MTAB-2805:S_cell2 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell2 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527354 SAMEA2699620 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:38:08Z External Id SAMEA2699620 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:38:08Z INSDC status public Submitter Id E-MTAB-2805:G1_cell71 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell71 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527355 SAMEA2699621 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:02Z External Id SAMEA2699621 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:02Z INSDC status public Submitter Id E-MTAB-2805:G1_cell19 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell19 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527356 SAMEA2699622 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:44:06Z External Id SAMEA2699622 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:44:06Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell72 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell72 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527357 SAMEA2699623 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:44:06Z External Id SAMEA2699623 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:44:06Z INSDC status public Submitter Id E-MTAB-2805:G1_cell6 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell6 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527358 SAMEA2699624 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:44:06Z External Id SAMEA2699624 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:44:06Z INSDC status public Submitter Id E-MTAB-2805:S_cell54 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell54 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527359 SAMEA2699625 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:44:06Z External Id SAMEA2699625 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:44:06Z INSDC status public Submitter Id E-MTAB-2805:G1_cell10 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell10 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527360 SAMEA2699626 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:44:06Z External Id SAMEA2699626 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:44:06Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell11 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell11 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527361 SAMEA2699627 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:44:06Z External Id SAMEA2699627 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:44:06Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell81 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell81 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527362 SAMEA2699628 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:44:06Z External Id SAMEA2699628 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:44:06Z INSDC status public Submitter Id E-MTAB-2805:S_cell87 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell87 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527363 SAMEA2699629 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:25Z External Id SAMEA2699629 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:25Z INSDC status public Submitter Id E-MTAB-2805:G1_cell41 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell41 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527364 SAMEA2699630 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:25Z External Id SAMEA2699630 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:25Z INSDC status public Submitter Id E-MTAB-2805:S_cell44 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell44 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527365 SAMEA2699631 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:25Z External Id SAMEA2699631 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:25Z INSDC status public Submitter Id E-MTAB-2805:G1_cell60 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell60 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527366 SAMEA2699632 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:25Z External Id SAMEA2699632 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:25Z INSDC status public Submitter Id E-MTAB-2805:G1_cell48 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell48 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527367 SAMEA2699633 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:25Z External Id SAMEA2699633 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:25Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell69 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell69 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527368 SAMEA2699634 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:25Z External Id SAMEA2699634 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:25Z INSDC status public Submitter Id E-MTAB-2805:S_cell39 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell39 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527369 SAMEA2699635 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:25Z External Id SAMEA2699635 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:25Z INSDC status public Submitter Id E-MTAB-2805:S_cell36 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell36 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527370 SAMEA2699636 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:40:01Z External Id SAMEA2699636 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:40:01Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell18 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell18 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527371 SAMEA2699637 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:40:01Z External Id SAMEA2699637 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:40:01Z INSDC status public Submitter Id E-MTAB-2805:S_cell79 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell79 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527372 SAMEA2699638 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:40:01Z External Id SAMEA2699638 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:40:01Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell87 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell87 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527373 SAMEA2699639 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:40:01Z External Id SAMEA2699639 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:40:01Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell83 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell83 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527374 SAMEA2699640 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:40:01Z External Id SAMEA2699640 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:40:01Z INSDC status public Submitter Id E-MTAB-2805:G1_cell26 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell26 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527375 SAMEA2699641 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:40:01Z External Id SAMEA2699641 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:40:01Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell76 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell76 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527376 SAMEA2699642 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:40:01Z External Id SAMEA2699642 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:40:01Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell64 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell64 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527377 SAMEA2699643 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:25Z External Id SAMEA2699643 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:25Z INSDC status public Submitter Id E-MTAB-2805:S_cell49 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell49 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527378 SAMEA2699644 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:26Z External Id SAMEA2699644 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:26Z INSDC status public Submitter Id E-MTAB-2805:G1_cell52 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell52 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527379 SAMEA2699645 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:26Z External Id SAMEA2699645 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:26Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell15 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell15 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527380 SAMEA2699646 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:26Z External Id SAMEA2699646 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:26Z INSDC status public Submitter Id E-MTAB-2805:G1_cell68 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell68 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527381 SAMEA2699647 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:26Z External Id SAMEA2699647 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:26Z INSDC status public Submitter Id E-MTAB-2805:S_cell52 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell52 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527382 SAMEA2699648 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:26Z External Id SAMEA2699648 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:26Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell51 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell51 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527383 SAMEA2699649 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:26Z External Id SAMEA2699649 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:26Z INSDC status public Submitter Id E-MTAB-2805:S_cell22 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell22 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527384 SAMEA2699650 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:26Z External Id SAMEA2699650 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:26Z INSDC status public Submitter Id E-MTAB-2805:S_cell85 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell85 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527385 SAMEA2699651 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:26Z External Id SAMEA2699651 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:26Z INSDC status public Submitter Id E-MTAB-2805:G1_cell1 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell1 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527386 SAMEA2699652 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:26Z External Id SAMEA2699652 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:26Z INSDC status public Submitter Id E-MTAB-2805:S_cell11 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell11 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527387 SAMEA2699653 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:26Z External Id SAMEA2699653 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:26Z INSDC status public Submitter Id E-MTAB-2805:G1_cell28 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell28 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527388 SAMEA2699654 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:26Z External Id SAMEA2699654 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:26Z INSDC status public Submitter Id E-MTAB-2805:S_cell56 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell56 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527389 SAMEA2699655 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:26Z External Id SAMEA2699655 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:26Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell80 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell80 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527390 SAMEA2699656 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:26Z External Id SAMEA2699656 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:26Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell86 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell86 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527391 SAMEA2699657 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:26Z External Id SAMEA2699657 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:26Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell56 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell56 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527392 SAMEA2699658 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:26Z External Id SAMEA2699658 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:26Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell89 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell89 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527393 SAMEA2699659 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:26Z External Id SAMEA2699659 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:26Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell31 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell31 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527394 SAMEA2699660 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:27Z External Id SAMEA2699660 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:27Z INSDC status public Submitter Id E-MTAB-2805:G1_cell82 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell82 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527395 SAMEA2699661 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:27Z External Id SAMEA2699661 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:27Z INSDC status public Submitter Id E-MTAB-2805:S_cell41 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell41 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527396 SAMEA2699662 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:27Z External Id SAMEA2699662 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:27Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell42 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell42 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527397 SAMEA2699663 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:27Z External Id SAMEA2699663 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:27Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell59 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell59 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527398 SAMEA2699664 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:27Z External Id SAMEA2699664 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:27Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell36 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell36 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527399 SAMEA2699665 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:27Z External Id SAMEA2699665 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:27Z INSDC status public Submitter Id E-MTAB-2805:G1_cell92 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell92 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527400 SAMEA2699666 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:27Z External Id SAMEA2699666 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:27Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell28 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell28 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527401 SAMEA2699667 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:28Z External Id SAMEA2699667 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:28Z INSDC status public Submitter Id E-MTAB-2805:G1_cell74 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell74 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527402 SAMEA2699668 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:28Z External Id SAMEA2699668 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:28Z INSDC status public Submitter Id E-MTAB-2805:G1_cell42 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell42 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527403 SAMEA2699669 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:28Z External Id SAMEA2699669 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:28Z INSDC status public Submitter Id E-MTAB-2805:S_cell15 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell15 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527404 SAMEA2699670 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:28Z External Id SAMEA2699670 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:28Z INSDC status public Submitter Id E-MTAB-2805:G1_cell57 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell57 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527405 SAMEA2699671 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:03Z External Id SAMEA2699671 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:03Z INSDC status public Submitter Id E-MTAB-2805:G1_cell39 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell39 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527406 SAMEA2699672 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:03Z External Id SAMEA2699672 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:03Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell24 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell24 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527407 SAMEA2699673 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:03Z External Id SAMEA2699673 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:03Z INSDC status public Submitter Id E-MTAB-2805:G1_cell87 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell87 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527408 SAMEA2699674 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:03Z External Id SAMEA2699674 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:03Z INSDC status public Submitter Id E-MTAB-2805:S_cell7 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell7 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527409 SAMEA2699675 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:03Z External Id SAMEA2699675 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:03Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell84 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell84 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527410 SAMEA2699676 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:03Z External Id SAMEA2699676 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:03Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell60 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell60 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527411 SAMEA2699677 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:03Z External Id SAMEA2699677 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:03Z INSDC status public Submitter Id E-MTAB-2805:G1_cell79 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell79 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527412 SAMEA2699678 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:04Z External Id SAMEA2699678 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:04Z INSDC status public Submitter Id E-MTAB-2805:S_cell35 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell35 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527413 SAMEA2699679 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:04Z External Id SAMEA2699679 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:04Z INSDC status public Submitter Id E-MTAB-2805:G1_cell78 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell78 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527414 SAMEA2699680 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:04Z External Id SAMEA2699680 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:04Z INSDC status public Submitter Id E-MTAB-2805:G1_cell34 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell34 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527415 SAMEA2699681 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:04Z External Id SAMEA2699681 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:04Z INSDC status public Submitter Id E-MTAB-2805:S_cell91 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell91 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527417 SAMEA2699683 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:04Z External Id SAMEA2699683 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:04Z INSDC status public Submitter Id E-MTAB-2805:S_cell25 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell25 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527418 SAMEA2699684 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:04Z External Id SAMEA2699684 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:04Z INSDC status public Submitter Id E-MTAB-2805:S_cell3 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell3 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527419 SAMEA2699685 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:04Z External Id SAMEA2699685 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:04Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell19 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell19 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527420 SAMEA2699686 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:04Z External Id SAMEA2699686 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:04Z INSDC status public Submitter Id E-MTAB-2805:G1_cell65 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell65 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527421 SAMEA2699687 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:04Z External Id SAMEA2699687 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:04Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell71 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell71 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527422 SAMEA2699688 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:04Z External Id SAMEA2699688 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:04Z INSDC status public Submitter Id E-MTAB-2805:S_cell29 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell29 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527423 SAMEA2699689 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:04Z External Id SAMEA2699689 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:04Z INSDC status public Submitter Id E-MTAB-2805:S_cell82 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell82 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527424 SAMEA2699690 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:04Z External Id SAMEA2699690 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:04Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell67 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell67 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527425 SAMEA2699691 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:04Z External Id SAMEA2699691 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:04Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell55 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell55 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527426 SAMEA2699692 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:04Z External Id SAMEA2699692 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:04Z INSDC status public Submitter Id E-MTAB-2805:S_cell10 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell10 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527427 SAMEA2699693 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:05Z External Id SAMEA2699693 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:05Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell77 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell77 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527428 SAMEA2699694 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:05Z External Id SAMEA2699694 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:05Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell45 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell45 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527429 SAMEA2699695 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:05Z External Id SAMEA2699695 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:05Z INSDC status public Submitter Id E-MTAB-2805:S_cell21 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell21 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527430 SAMEA2699696 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:05Z External Id SAMEA2699696 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:05Z INSDC status public Submitter Id E-MTAB-2805:S_cell62 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell62 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527431 SAMEA2699697 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:05Z External Id SAMEA2699697 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:05Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell95 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell95 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527432 SAMEA2699698 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:05Z External Id SAMEA2699698 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:05Z INSDC status public Submitter Id E-MTAB-2805:G1_cell5 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell5 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527433 SAMEA2699699 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:05Z External Id SAMEA2699699 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:05Z INSDC status public Submitter Id E-MTAB-2805:G1_cell81 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell81 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527434 SAMEA2699700 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:05Z External Id SAMEA2699700 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:05Z INSDC status public Submitter Id E-MTAB-2805:G1_cell25 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell25 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527435 SAMEA2699701 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:05Z External Id SAMEA2699701 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:05Z INSDC status public Submitter Id E-MTAB-2805:G1_cell12 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell12 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527436 SAMEA2699702 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:05Z External Id SAMEA2699702 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:05Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell68 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell68 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527437 SAMEA2699703 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:05Z External Id SAMEA2699703 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:05Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell23 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell23 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527416 SAMEA2699682 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:04Z External Id SAMEA2699682 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:04Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell47 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell47 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527438 SAMEA2699704 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:05Z External Id SAMEA2699704 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:05Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell10 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell10 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527439 SAMEA2699705 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:05Z External Id SAMEA2699705 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:05Z INSDC status public Submitter Id E-MTAB-2805:S_cell45 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell45 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527440 SAMEA2699706 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:05Z External Id SAMEA2699706 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:05Z INSDC status public Submitter Id E-MTAB-2805:G1_cell4 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell4 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527441 SAMEA2699707 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:05Z External Id SAMEA2699707 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:05Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell6 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell6 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527442 SAMEA2699708 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:06Z External Id SAMEA2699708 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:06Z INSDC status public Submitter Id E-MTAB-2805:G1_cell20 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell20 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527443 SAMEA2699709 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:06Z External Id SAMEA2699709 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:06Z INSDC status public Submitter Id E-MTAB-2805:S_cell8 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell8 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527444 SAMEA2699710 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:06Z External Id SAMEA2699710 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:06Z INSDC status public Submitter Id E-MTAB-2805:S_cell76 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell76 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527445 SAMEA2699711 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:06Z External Id SAMEA2699711 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:06Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell30 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell30 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527446 SAMEA2699712 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:41:06Z External Id SAMEA2699712 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:41:06Z INSDC status public Submitter Id E-MTAB-2805:S_cell40 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell40 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527447 SAMEA2699713 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:26Z External Id SAMEA2699713 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:26Z INSDC status public Submitter Id E-MTAB-2805:G1_cell36 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell36 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527448 SAMEA2699714 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:26Z External Id SAMEA2699714 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:26Z INSDC status public Submitter Id E-MTAB-2805:G1_cell90 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell90 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527449 SAMEA2699715 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:26Z External Id SAMEA2699715 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:26Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell85 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell85 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527450 SAMEA2699716 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:26Z External Id SAMEA2699716 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:26Z INSDC status public Submitter Id E-MTAB-2805:G1_cell69 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell69 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527451 SAMEA2699717 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:26Z External Id SAMEA2699717 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:26Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell14 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell14 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527452 SAMEA2699718 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:26Z External Id SAMEA2699718 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:26Z INSDC status public Submitter Id E-MTAB-2805:S_cell26 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell26 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527453 SAMEA2699719 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:27Z External Id SAMEA2699719 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:27Z INSDC status public Submitter Id E-MTAB-2805:S_cell16 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell16 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527454 SAMEA2699720 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:27Z External Id SAMEA2699720 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:27Z INSDC status public Submitter Id E-MTAB-2805:G1_cell80 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell80 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527455 SAMEA2699721 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:27Z External Id SAMEA2699721 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:27Z INSDC status public Submitter Id E-MTAB-2805:G1_cell13 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell13 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527456 SAMEA2699722 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:27Z External Id SAMEA2699722 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:27Z INSDC status public Submitter Id E-MTAB-2805:G1_cell24 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell24 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527457 SAMEA2699723 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:27Z External Id SAMEA2699723 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:27Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell35 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell35 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527458 SAMEA2699724 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:27Z External Id SAMEA2699724 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:27Z INSDC status public Submitter Id E-MTAB-2805:S_cell46 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell46 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527459 SAMEA2699725 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:27Z External Id SAMEA2699725 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:27Z INSDC status public Submitter Id E-MTAB-2805:S_cell94 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell94 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527460 SAMEA2699726 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:27Z External Id SAMEA2699726 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:27Z INSDC status public Submitter Id E-MTAB-2805:S_cell55 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell55 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527461 SAMEA2699727 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:27Z External Id SAMEA2699727 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:27Z INSDC status public Submitter Id E-MTAB-2805:G1_cell95 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell95 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527462 SAMEA2699728 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:27Z External Id SAMEA2699728 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:27Z INSDC status public Submitter Id E-MTAB-2805:S_cell78 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell78 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527463 SAMEA2699729 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:27Z External Id SAMEA2699729 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:27Z INSDC status public Submitter Id E-MTAB-2805:S_cell93 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell93 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527464 SAMEA2699730 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:27Z External Id SAMEA2699730 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:27Z INSDC status public Submitter Id E-MTAB-2805:S_cell64 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell64 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527465 SAMEA2699731 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:27Z External Id SAMEA2699731 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:27Z INSDC status public Submitter Id E-MTAB-2805:G1_cell70 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell70 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527466 SAMEA2699732 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:27Z External Id SAMEA2699732 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:27Z INSDC status public Submitter Id E-MTAB-2805:S_cell6 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell6 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527467 SAMEA2699733 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:27Z External Id SAMEA2699733 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:27Z INSDC status public Submitter Id E-MTAB-2805:S_cell37 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell37 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527468 SAMEA2699734 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:27Z External Id SAMEA2699734 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:27Z INSDC status public Submitter Id E-MTAB-2805:S_cell50 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell50 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527469 SAMEA2699735 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699735 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell25 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell25 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527470 SAMEA2699736 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699736 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell12 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell12 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527471 SAMEA2699737 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699737 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:S_cell68 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell68 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527472 SAMEA2699738 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699738 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:G1_cell32 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell32 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527473 SAMEA2699739 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699739 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:S_cell32 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell32 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527474 SAMEA2699740 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699740 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:G1_cell7 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell7 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527475 SAMEA2699741 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699741 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:S_cell43 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell43 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527476 SAMEA2699742 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699742 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:G1_cell51 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell51 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527477 SAMEA2699743 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699743 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:S_cell83 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell83 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527478 SAMEA2699744 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699744 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:S_cell70 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell70 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527479 SAMEA2699745 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699745 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell94 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell94 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527480 SAMEA2699746 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699746 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:G1_cell83 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell83 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527481 SAMEA2699747 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699747 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell29 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell29 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527482 SAMEA2699748 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699748 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:S_cell31 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell31 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527483 SAMEA2699749 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699749 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell16 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell16 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527484 SAMEA2699750 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699750 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:S_cell34 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell34 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527485 SAMEA2699751 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699751 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:G1_cell96 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell96 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527486 SAMEA2699752 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699752 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell9 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell9 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527487 SAMEA2699753 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:28Z External Id SAMEA2699753 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:28Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell52 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell52 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527488 SAMEA2699754 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:29Z External Id SAMEA2699754 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:29Z INSDC status public Submitter Id E-MTAB-2805:G1_cell35 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell35 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527489 SAMEA2699755 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:29Z External Id SAMEA2699755 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:29Z INSDC status public Submitter Id E-MTAB-2805:G1_cell56 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell56 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527490 SAMEA2699756 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:29Z External Id SAMEA2699756 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:29Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell74 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell74 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527491 SAMEA2699757 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:29Z External Id SAMEA2699757 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:29Z INSDC status public Submitter Id E-MTAB-2805:G1_cell21 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell21 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527492 SAMEA2699758 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:29Z External Id SAMEA2699758 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:29Z INSDC status public Submitter Id E-MTAB-2805:G1_cell73 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell73 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527493 SAMEA2699759 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:29Z External Id SAMEA2699759 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:29Z INSDC status public Submitter Id E-MTAB-2805:S_cell75 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell75 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527494 SAMEA2699760 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:29Z External Id SAMEA2699760 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:29Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell41 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell41 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527495 SAMEA2699761 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:42:29Z External Id SAMEA2699761 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:42:29Z INSDC status public Submitter Id E-MTAB-2805:G1_cell31 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell31 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527496 SAMEA2699762 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:03Z External Id SAMEA2699762 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:03Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell63 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell63 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527497 SAMEA2699763 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:03Z External Id SAMEA2699763 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:03Z INSDC status public Submitter Id E-MTAB-2805:S_cell63 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell63 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527498 SAMEA2699764 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:03Z External Id SAMEA2699764 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:03Z INSDC status public Submitter Id E-MTAB-2805:G1_cell58 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell58 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527499 SAMEA2699765 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:03Z External Id SAMEA2699765 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:03Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell49 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell49 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527500 SAMEA2699766 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:03Z External Id SAMEA2699766 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:03Z INSDC status public Submitter Id E-MTAB-2805:S_cell19 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell19 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527501 SAMEA2699767 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:03Z External Id SAMEA2699767 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:03Z INSDC status public Submitter Id E-MTAB-2805:S_cell92 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell92 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527502 SAMEA2699768 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:03Z External Id SAMEA2699768 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:03Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell90 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell90 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527503 SAMEA2699769 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:03Z External Id SAMEA2699769 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:03Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell39 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell39 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527504 SAMEA2699770 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:03Z External Id SAMEA2699770 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:03Z INSDC status public Submitter Id E-MTAB-2805:G1_cell46 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell46 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527505 SAMEA2699771 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:03Z External Id SAMEA2699771 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:03Z INSDC status public Submitter Id E-MTAB-2805:G1_cell16 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell16 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527506 SAMEA2699772 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:03Z External Id SAMEA2699772 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:03Z INSDC status public Submitter Id E-MTAB-2805:S_cell95 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell95 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527507 SAMEA2699773 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:03Z External Id SAMEA2699773 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:03Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell70 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell70 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527508 SAMEA2699774 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:03Z External Id SAMEA2699774 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:03Z INSDC status public Submitter Id E-MTAB-2805:S_cell24 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell24 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527509 SAMEA2699775 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:03Z External Id SAMEA2699775 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:03Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell96 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell96 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527510 SAMEA2699776 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:03Z External Id SAMEA2699776 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:03Z INSDC status public Submitter Id E-MTAB-2805:S_cell67 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell67 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527511 SAMEA2699777 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:04Z External Id SAMEA2699777 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:04Z INSDC status public Submitter Id E-MTAB-2805:S_cell51 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell51 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527512 SAMEA2699778 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:04Z External Id SAMEA2699778 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:04Z INSDC status public Submitter Id E-MTAB-2805:G1_cell91 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell91 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527513 SAMEA2699779 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:04Z External Id SAMEA2699779 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:04Z INSDC status public Submitter Id E-MTAB-2805:S_cell61 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell61 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527514 SAMEA2699780 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:04Z External Id SAMEA2699780 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:04Z INSDC status public Submitter Id E-MTAB-2805:S_cell77 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell77 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527515 SAMEA2699781 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:56Z External Id SAMEA2699781 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:56Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell5 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell5 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527516 SAMEA2699782 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:56Z External Id SAMEA2699782 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:56Z INSDC status public Submitter Id E-MTAB-2805:S_cell33 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell33 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527517 SAMEA2699783 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:56Z External Id SAMEA2699783 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:56Z INSDC status public Submitter Id E-MTAB-2805:S_cell17 broker name ArrayExpress cell cycle stage S cell line AB2.2 common name house mouse sample name E-MTAB-2805:S_cell17 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527518 SAMEA2699784 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:56Z External Id SAMEA2699784 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:56Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell79 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell79 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527519 SAMEA2699785 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:56Z External Id SAMEA2699785 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:56Z INSDC status public Submitter Id E-MTAB-2805:G1_cell84 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell84 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527520 SAMEA2699786 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:57Z External Id SAMEA2699786 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:57Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell78 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell78 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527521 SAMEA2699787 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:54:57Z External Id SAMEA2699787 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:54:57Z INSDC status public Submitter Id E-MTAB-2805:G1_cell62 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell62 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527522 SAMEA2699788 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699788 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:G2M_cell34 broker name ArrayExpress cell cycle stage G2/M cell line AB2.2 common name house mouse sample name E-MTAB-2805:G2M_cell34 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC ERS527523 SAMEA2699789 10090 Mus musculus Protocols: mESC were grown in standard 2i media. The media composition was N2B27 basal media (NDiff 227, StemCells), 100 U/ml recombinant human leukemia inhibitory factor (Millipore), 1M PD0325901 (Stemgent), 3M CHIR99021 (Stemgent). For sorting of cell cycle fractions (G1, S and G2M), cells were trypisinized and stained with Hoechst 33342 (5_M) for 30min at 37C. Cells were sorted based on Hoechst staining for G1, S and G2M stages of cell cycle. For each cell cycle fraction, 3000 cells were loaded onto a 10-17 micron Fluidigm C1 Single-Cell Auto Prep IFC and cell capture was performed as per manufacturers protocol. Single cell capture, lysis, Reverse transcription and cDNA amplification are performed using the SMARTer cDNA synthesis kit (Clonetech) and Advantage2PCR kit (Clonetech) with 1:100 ratio of spike in (Ambion), within the IFC inside the C1-Autoprep system as per manufacturers protocol. Harvested cDNA from single cells after C1-Autoprep system run were used to make single cell libraries using Nextera XT DNA sample preparation kit (Illumina) utilising 96 dual barcoded indices. Library poolup was performed using AMPure XP beads (Agencourt Biosciences) and single cell libraries were sent for paired end sequencing at the Wellcome Trust Sequencing facility ENA-FIRST-PUBLIC 2014-12-30T17:01:23Z ENA-LAST-UPDATE 2018-03-08T19:56:08Z External Id SAMEA2699789 INSDC center name EMBL-EBI, Wellcome Trust Genome Campus, Cambridge INSDC first public 2014-12-30T17:01:23Z INSDC last update 2018-03-08T19:56:08Z INSDC status public Submitter Id E-MTAB-2805:G1_cell3 broker name ArrayExpress cell cycle stage G1 cell line AB2.2 common name house mouse sample name E-MTAB-2805:G1_cell3 scientific_name Mus musculus specimen with known storage state fresh specimen strain mESC