SRX17959270 GSM6659199_r1 SRP403532 PRJNA892141 SRS15475916 GSM6659199 GSM6659199 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959271 GSM6659200_r1 SRP403532 PRJNA892141 SRS15475918 GSM6659200 GSM6659200 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959272 GSM6659201_r1 SRP403532 PRJNA892141 SRS15475917 GSM6659201 GSM6659201 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959273 GSM6659202_r1 SRP403532 PRJNA892141 SRS15475919 GSM6659202 GSM6659202 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959274 GSM6659203_r1 SRP403532 PRJNA892141 SRS15475920 GSM6659203 GSM6659203 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959275 GSM6659204_r1 SRP403532 PRJNA892141 SRS15475921 GSM6659204 GSM6659204 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959276 GSM6659205_r1 SRP403532 PRJNA892141 SRS15475922 GSM6659205 GSM6659205 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959277 GSM6659206_r1 SRP403532 PRJNA892141 SRS15475923 GSM6659206 GSM6659206 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959278 GSM6659207_r1 SRP403532 PRJNA892141 SRS15475924 GSM6659207 GSM6659207 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959279 GSM6659208_r1 SRP403532 PRJNA892141 SRS15475925 GSM6659208 GSM6659208 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959280 GSM6659209_r1 SRP403532 PRJNA892141 SRS15475926 GSM6659209 GSM6659209 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959281 GSM6659210_r1 SRP403532 PRJNA892141 SRS15475927 GSM6659210 GSM6659210 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959282 GSM6659211_r1 SRP403532 PRJNA892141 SRS15475928 GSM6659211 GSM6659211 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959283 GSM6659212_r1 SRP403532 PRJNA892141 SRS15475929 GSM6659212 GSM6659212 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959284 GSM6659213_r1 SRP403532 PRJNA892141 SRS15475930 GSM6659213 GSM6659213 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959285 GSM6659214_r1 SRP403532 PRJNA892141 SRS15475931 GSM6659214 GSM6659214 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959286 GSM6659215_r1 SRP403532 PRJNA892141 SRS15475932 GSM6659215 GSM6659215 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500 SRX17959287 GSM6659216_r1 SRP403532 PRJNA892141 SRS15475933 GSM6659216 GSM6659216 RNA-Seq TRANSCRIPTOMIC SINGLE CELL cDNA For single-cell RNA-seq analysis of dataset1 and dataset2, we performed Quartz-Seq2 as reported previously [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. For the Quartz-Seq2 method, single-cell was aliquoted into the wells of a 384-well PCR plate with cell-sorter. These plates contain reverse transcription primers with different cell-barcodes in each well. For dataset1 and dataset2, v3.1 RT primers and v3.2a RT primers are used, respectively. In dataset1, ERCC spike mix I was included in the lysis buffer of the 384-well PCR plate. The collected single-cell lysis plates were stored at -80 ºC until the next whole-transcript amplification steps. The whole-transcript amplification steps and sequence library preparation were performed as described in previous paper [Sasagawa et al., Genome Biology 19:29(2018), https://doi.org/10.1186/s13059-018-1407-3]. The sequence library DNA was analyzed by the Agilent High Sensitivity DNA Kit (Agilent) and QuantiFluor® dsDNA System (Promega) to measure the exact DNA size length and DNA concentration. The sequence library DNA was then analyzed with NextSeq500 HOP 75 cycles kit v2.5. NextSeq 500