ERS6307895 SAMEA8623299 9606 Homo sapiens Protocols: Cells grown to ~90% confluency in 10cm dishes were collected by trypsinization and washed once in PBS. For fractionation the cells were lysed in lysis buffer, followed by separation of the nucleus from the cytoplasmic material by centrifugation in a sucrose cushion. The isolated nucleus was rinsed once in PBS-EDTA and lysed by adding glycerol buffer and urea buffer in equal volumes. The precipitate, which contained the chromatin-RNA complex, was isolated by centrifugation and washed once in PBS-EDTA. RNA from each of the three subcellular compartments was isolated by Trizol™ (Thermo Fisher®). Bulk CAGE libraries were generated by the nAnT-iCAGE method cDNA was reverse transcribed using SuperScript III reverse transcriptase, biotinylated and cap trapped to capture 5' completed cDNAs. Each cDNAs were barcoded and purified. ENA first public 2021-04-29 ENA last update 2021-04-27 External Id SAMEA8623299 INSDC center alias RIKEN Center for Integrative Medical Sciences INSDC center name RIKEN Center for Integrative Medical Sciences INSDC first public 2021-04-29T00:42:59Z INSDC last update 2021-04-27T08:58:42Z INSDC status public Submitter Id E-MTAB-10384:DMFB 1 broker name ArrayExpress cell line DMFB cell type fibroblast common name human developmental stage neonate organism part foreskin sample name E-MTAB-10384:DMFB 1 ERS6307896 SAMEA8623300 9606 Homo sapiens Protocols: Cells grown to ~90% confluency in 10cm dishes were collected by trypsinization and washed once in PBS. For fractionation the cells were lysed in lysis buffer, followed by separation of the nucleus from the cytoplasmic material by centrifugation in a sucrose cushion. The isolated nucleus was rinsed once in PBS-EDTA and lysed by adding glycerol buffer and urea buffer in equal volumes. The precipitate, which contained the chromatin-RNA complex, was isolated by centrifugation and washed once in PBS-EDTA. RNA from each of the three subcellular compartments was isolated by Trizol™ (Thermo Fisher®). Bulk CAGE libraries were generated by the nAnT-iCAGE method cDNA was reverse transcribed using SuperScript III reverse transcriptase, biotinylated and cap trapped to capture 5' completed cDNAs. Each cDNAs were barcoded and purified. ENA first public 2021-04-29 ENA last update 2021-04-27 External Id SAMEA8623300 INSDC center alias RIKEN Center for Integrative Medical Sciences INSDC center name RIKEN Center for Integrative Medical Sciences INSDC first public 2021-04-29T00:42:59Z INSDC last update 2021-04-27T08:58:42Z INSDC status public Submitter Id E-MTAB-10384:DMFB 2 broker name ArrayExpress cell line DMFB cell type fibroblast common name human developmental stage neonate organism part foreskin sample name E-MTAB-10384:DMFB 2 ERS6307897 SAMEA8623301 9606 Homo sapiens Protocols: Cells grown to ~90% confluency in 10cm dishes were collected by trypsinization and washed once in PBS. For fractionation the cells were lysed in lysis buffer, followed by separation of the nucleus from the cytoplasmic material by centrifugation in a sucrose cushion. The isolated nucleus was rinsed once in PBS-EDTA and lysed by adding glycerol buffer and urea buffer in equal volumes. The precipitate, which contained the chromatin-RNA complex, was isolated by centrifugation and washed once in PBS-EDTA. RNA from each of the three subcellular compartments was isolated by Trizol™ (Thermo Fisher®). Bulk CAGE libraries were generated by the nAnT-iCAGE method cDNA was reverse transcribed using SuperScript III reverse transcriptase, biotinylated and cap trapped to capture 5' completed cDNAs. Each cDNAs were barcoded and purified. ENA first public 2021-04-29 ENA last update 2021-04-27 External Id SAMEA8623301 INSDC center alias RIKEN Center for Integrative Medical Sciences INSDC center name RIKEN Center for Integrative Medical Sciences INSDC first public 2021-04-29T00:42:59Z INSDC last update 2021-04-27T08:58:42Z INSDC status public Submitter Id E-MTAB-10384:DMFB 3 broker name ArrayExpress cell line DMFB cell type fibroblast common name human developmental stage neonate organism part foreskin sample name E-MTAB-10384:DMFB 3 ERS6307898 SAMEA8623302 9606 Homo sapiens Protocols: Cells grown to ~90% confluency in 10cm dishes were collected by trypsinization and washed once in PBS. For fractionation the cells were lysed in lysis buffer, followed by separation of the nucleus from the cytoplasmic material by centrifugation in a sucrose cushion. The isolated nucleus was rinsed once in PBS-EDTA and lysed by adding glycerol buffer and urea buffer in equal volumes. The precipitate, which contained the chromatin-RNA complex, was isolated by centrifugation and washed once in PBS-EDTA. RNA from each of the three subcellular compartments was isolated by Trizol™ (Thermo Fisher®). Bulk CAGE libraries were generated by the nAnT-iCAGE method cDNA was reverse transcribed using SuperScript III reverse transcriptase, biotinylated and cap trapped to capture 5' completed cDNAs. Each cDNAs were barcoded and purified. ENA first public 2021-04-29 ENA last update 2021-04-27 External Id SAMEA8623302 INSDC center alias RIKEN Center for Integrative Medical Sciences INSDC center name RIKEN Center for Integrative Medical Sciences INSDC first public 2021-04-29T00:42:59Z INSDC last update 2021-04-27T08:58:42Z INSDC status public Submitter Id E-MTAB-10384:DMFB 4 broker name ArrayExpress cell line DMFB cell type fibroblast common name human developmental stage neonate organism part foreskin sample name E-MTAB-10384:DMFB 4 ERS6307899 SAMEA8623303 9606 Homo sapiens Protocols: Cells grown to ~90% confluency in 10cm dishes were collected by trypsinization and washed once in PBS. For fractionation the cells were lysed in lysis buffer, followed by separation of the nucleus from the cytoplasmic material by centrifugation in a sucrose cushion. The isolated nucleus was rinsed once in PBS-EDTA and lysed by adding glycerol buffer and urea buffer in equal volumes. The precipitate, which contained the chromatin-RNA complex, was isolated by centrifugation and washed once in PBS-EDTA. RNA from each of the three subcellular compartments was isolated by Trizol™ (Thermo Fisher®). Bulk CAGE libraries were generated by the nAnT-iCAGE method cDNA was reverse transcribed using SuperScript III reverse transcriptase, biotinylated and cap trapped to capture 5' completed cDNAs. Each cDNAs were barcoded and purified. ENA first public 2021-04-29 ENA last update 2021-04-27 External Id SAMEA8623303 INSDC center alias RIKEN Center for Integrative Medical Sciences INSDC center name RIKEN Center for Integrative Medical Sciences INSDC first public 2021-04-29T00:42:59Z INSDC last update 2021-04-27T08:58:42Z INSDC status public Submitter Id E-MTAB-10384:iPSC 1 broker name ArrayExpress cell line iPSC cell type induced pluripotent stem cell common name human sample name E-MTAB-10384:iPSC 1 ERS6307900 SAMEA8623304 9606 Homo sapiens Protocols: Cells grown to ~90% confluency in 10cm dishes were collected by trypsinization and washed once in PBS. For fractionation the cells were lysed in lysis buffer, followed by separation of the nucleus from the cytoplasmic material by centrifugation in a sucrose cushion. The isolated nucleus was rinsed once in PBS-EDTA and lysed by adding glycerol buffer and urea buffer in equal volumes. The precipitate, which contained the chromatin-RNA complex, was isolated by centrifugation and washed once in PBS-EDTA. RNA from each of the three subcellular compartments was isolated by Trizol™ (Thermo Fisher®). Bulk CAGE libraries were generated by the nAnT-iCAGE method cDNA was reverse transcribed using SuperScript III reverse transcriptase, biotinylated and cap trapped to capture 5' completed cDNAs. Each cDNAs were barcoded and purified. ENA first public 2021-04-29 ENA last update 2021-04-27 External Id SAMEA8623304 INSDC center alias RIKEN Center for Integrative Medical Sciences INSDC center name RIKEN Center for Integrative Medical Sciences INSDC first public 2021-04-29T00:42:59Z INSDC last update 2021-04-27T08:58:42Z INSDC status public Submitter Id E-MTAB-10384:iPSC 2 broker name ArrayExpress cell line iPSC cell type induced pluripotent stem cell common name human sample name E-MTAB-10384:iPSC 2 ERS6307901 SAMEA8623305 9606 Homo sapiens Protocols: Cells grown to ~90% confluency in 10cm dishes were collected by trypsinization and washed once in PBS. For fractionation the cells were lysed in lysis buffer, followed by separation of the nucleus from the cytoplasmic material by centrifugation in a sucrose cushion. The isolated nucleus was rinsed once in PBS-EDTA and lysed by adding glycerol buffer and urea buffer in equal volumes. The precipitate, which contained the chromatin-RNA complex, was isolated by centrifugation and washed once in PBS-EDTA. RNA from each of the three subcellular compartments was isolated by Trizol™ (Thermo Fisher®). Bulk CAGE libraries were generated by the nAnT-iCAGE method cDNA was reverse transcribed using SuperScript III reverse transcriptase, biotinylated and cap trapped to capture 5' completed cDNAs. Each cDNAs were barcoded and purified. ENA first public 2021-04-29 ENA last update 2021-04-27 External Id SAMEA8623305 INSDC center alias RIKEN Center for Integrative Medical Sciences INSDC center name RIKEN Center for Integrative Medical Sciences INSDC first public 2021-04-29T00:42:59Z INSDC last update 2021-04-27T08:58:42Z INSDC status public Submitter Id E-MTAB-10384:iPSC 3 broker name ArrayExpress cell line iPSC cell type induced pluripotent stem cell common name human sample name E-MTAB-10384:iPSC 3 ERS6307902 SAMEA8623306 9606 Homo sapiens Protocols: Cells grown to ~90% confluency in 10cm dishes were collected by trypsinization and washed once in PBS. For fractionation the cells were lysed in lysis buffer, followed by separation of the nucleus from the cytoplasmic material by centrifugation in a sucrose cushion. The isolated nucleus was rinsed once in PBS-EDTA and lysed by adding glycerol buffer and urea buffer in equal volumes. The precipitate, which contained the chromatin-RNA complex, was isolated by centrifugation and washed once in PBS-EDTA. RNA from each of the three subcellular compartments was isolated by Trizol™ (Thermo Fisher®). Bulk CAGE libraries were generated by the nAnT-iCAGE method cDNA was reverse transcribed using SuperScript III reverse transcriptase, biotinylated and cap trapped to capture 5' completed cDNAs. Each cDNAs were barcoded and purified. ENA first public 2021-04-29 ENA last update 2021-04-27 External Id SAMEA8623306 INSDC center alias RIKEN Center for Integrative Medical Sciences INSDC center name RIKEN Center for Integrative Medical Sciences INSDC first public 2021-04-29T00:42:59Z INSDC last update 2021-04-27T08:58:42Z INSDC status public Submitter Id E-MTAB-10384:iPSC 4 broker name ArrayExpress cell line iPSC cell type induced pluripotent stem cell common name human sample name E-MTAB-10384:iPSC 4