SRX3401285 GSM2859809 SRP125143 SRS2695429 GSM2859809 ATAC-seq GENOMIC other 50,000 cells were used per reaction. Nuclei were isolated after resuspension and centrifugation in Lysis buffer (10 mM Tris.Cl, pH 7.4, 10 mM NaCl, 3 mMMgCl2, 1% (v/v) Igepal CA-630. The 50 µl transposase reaction with isolated nuclei (plus 25 µl TD, 2.5 µl TDE1 and 22.5µl H2O) was incubated at 37°C for 30 min. DNA was purified using a MinElutePCR purification column (Qiagen). The transposed DNA fragments were preamplified by a first PCR reaction with 5 cycles containing barcoded Nextera PCR primers. The optimal number of cycles was determined by a SybrGreen qPCR reaction containing a 5 µl aliquot from the first PCR. The second PCR was then carried out with 8 cycles and the libraries were first purified by MinElutePCR purification column (Qiagen) and then further size-selected by AMPure XP beads to obtain libraries with a size distribution between 150-1000 base pairs. NextSeq 500 gds 302859809 GSM2859809 GEO Accession GSM2859809 SRX3401286 GSM2859810 SRP125143 SRS2695430 GSM2859810 ATAC-seq GENOMIC other 50,000 cells were used per reaction. Nuclei were isolated after resuspension and centrifugation in Lysis buffer (10 mM Tris.Cl, pH 7.4, 10 mM NaCl, 3 mMMgCl2, 1% (v/v) Igepal CA-630. The 50 µl transposase reaction with isolated nuclei (plus 25 µl TD, 2.5 µl TDE1 and 22.5µl H2O) was incubated at 37°C for 30 min. DNA was purified using a MinElutePCR purification column (Qiagen). The transposed DNA fragments were preamplified by a first PCR reaction with 5 cycles containing barcoded Nextera PCR primers. The optimal number of cycles was determined by a SybrGreen qPCR reaction containing a 5 µl aliquot from the first PCR. The second PCR was then carried out with 8 cycles and the libraries were first purified by MinElutePCR purification column (Qiagen) and then further size-selected by AMPure XP beads to obtain libraries with a size distribution between 150-1000 base pairs. NextSeq 500 gds 302859810 GSM2859810 GEO Accession GSM2859810 SRX3401287 GSM2859811 SRP125143 SRS2695431 GSM2859811 ATAC-seq GENOMIC other 50,000 cells were used per reaction. Nuclei were isolated after resuspension and centrifugation in Lysis buffer (10 mM Tris.Cl, pH 7.4, 10 mM NaCl, 3 mMMgCl2, 1% (v/v) Igepal CA-630. The 50 µl transposase reaction with isolated nuclei (plus 25 µl TD, 2.5 µl TDE1 and 22.5µl H2O) was incubated at 37°C for 30 min. DNA was purified using a MinElutePCR purification column (Qiagen). The transposed DNA fragments were preamplified by a first PCR reaction with 5 cycles containing barcoded Nextera PCR primers. The optimal number of cycles was determined by a SybrGreen qPCR reaction containing a 5 µl aliquot from the first PCR. The second PCR was then carried out with 8 cycles and the libraries were first purified by MinElutePCR purification column (Qiagen) and then further size-selected by AMPure XP beads to obtain libraries with a size distribution between 150-1000 base pairs. NextSeq 500 gds 302859811 GSM2859811 GEO Accession GSM2859811 SRX3401288 GSM2859812 SRP125143 SRS2695432 GSM2859812 ATAC-seq GENOMIC other 50,000 cells were used per reaction. Nuclei were isolated after resuspension and centrifugation in Lysis buffer (10 mM Tris.Cl, pH 7.4, 10 mM NaCl, 3 mMMgCl2, 1% (v/v) Igepal CA-630. The 50 µl transposase reaction with isolated nuclei (plus 25 µl TD, 2.5 µl TDE1 and 22.5µl H2O) was incubated at 37°C for 30 min. DNA was purified using a MinElutePCR purification column (Qiagen). The transposed DNA fragments were preamplified by a first PCR reaction with 5 cycles containing barcoded Nextera PCR primers. The optimal number of cycles was determined by a SybrGreen qPCR reaction containing a 5 µl aliquot from the first PCR. The second PCR was then carried out with 8 cycles and the libraries were first purified by MinElutePCR purification column (Qiagen) and then further size-selected by AMPure XP beads to obtain libraries with a size distribution between 150-1000 base pairs. NextSeq 500 gds 302859812 GSM2859812 GEO Accession GSM2859812