SRX23799347 GSM8121004_r1 SRP435987 PRJNA967382 SRS20622363 GSM8121004 GSM8121004 RNA-Seq TRANSCRIPTOMIC cDNA To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, total RNA was collected in Trizol and purified using the Direct-zol RNA MiniPrep kit (Zymo Research) according to the manufacturer's instructions. DNase treatment was performed to remove genomic DNA (RNase-Free DNase Set, Qiagen). Sample quality was determined using an Agilent 2100 Bioanalyzer; all samples for sequencing had RNA integrity (RIN) numbers >8. cDNA library construction was performed by the Rockefeller University (RU) Genomic Core facility. Illumina NovaSeq 6000 SRX23799348 GSM8121005_r1 SRP435987 PRJNA967382 SRS20622364 GSM8121005 GSM8121005 RNA-Seq TRANSCRIPTOMIC cDNA To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, total RNA was collected in Trizol and purified using the Direct-zol RNA MiniPrep kit (Zymo Research) according to the manufacturer's instructions. DNase treatment was performed to remove genomic DNA (RNase-Free DNase Set, Qiagen). Sample quality was determined using an Agilent 2100 Bioanalyzer; all samples for sequencing had RNA integrity (RIN) numbers >8. cDNA library construction was performed by the Rockefeller University (RU) Genomic Core facility. Illumina NovaSeq 6000 SRX23799349 GSM8121006_r1 SRP435987 PRJNA967382 SRS20622365 GSM8121006 GSM8121006 RNA-Seq TRANSCRIPTOMIC cDNA To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, total RNA was collected in Trizol and purified using the Direct-zol RNA MiniPrep kit (Zymo Research) according to the manufacturer's instructions. DNase treatment was performed to remove genomic DNA (RNase-Free DNase Set, Qiagen). Sample quality was determined using an Agilent 2100 Bioanalyzer; all samples for sequencing had RNA integrity (RIN) numbers >8. cDNA library construction was performed by the Rockefeller University (RU) Genomic Core facility. Illumina NovaSeq 6000 SRX23799350 GSM8121007_r1 SRP435987 PRJNA967382 SRS20622368 GSM8121007 GSM8121007 RNA-Seq TRANSCRIPTOMIC cDNA To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, total RNA was collected in Trizol and purified using the Direct-zol RNA MiniPrep kit (Zymo Research) according to the manufacturer's instructions. DNase treatment was performed to remove genomic DNA (RNase-Free DNase Set, Qiagen). Sample quality was determined using an Agilent 2100 Bioanalyzer; all samples for sequencing had RNA integrity (RIN) numbers >8. cDNA library construction was performed by the Rockefeller University (RU) Genomic Core facility. Illumina NovaSeq 6000 SRX23799351 GSM8121008_r1 SRP435987 PRJNA967382 SRS20622366 GSM8121008 GSM8121008 RNA-Seq TRANSCRIPTOMIC cDNA To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, total RNA was collected in Trizol and purified using the Direct-zol RNA MiniPrep kit (Zymo Research) according to the manufacturer's instructions. DNase treatment was performed to remove genomic DNA (RNase-Free DNase Set, Qiagen). Sample quality was determined using an Agilent 2100 Bioanalyzer; all samples for sequencing had RNA integrity (RIN) numbers >8. cDNA library construction was performed by the Rockefeller University (RU) Genomic Core facility. Illumina NovaSeq 6000 SRX23799352 GSM8121009_r1 SRP435987 PRJNA967382 SRS20622367 GSM8121009 GSM8121009 RNA-Seq TRANSCRIPTOMIC cDNA To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, total RNA was collected in Trizol and purified using the Direct-zol RNA MiniPrep kit (Zymo Research) according to the manufacturer's instructions. DNase treatment was performed to remove genomic DNA (RNase-Free DNase Set, Qiagen). Sample quality was determined using an Agilent 2100 Bioanalyzer; all samples for sequencing had RNA integrity (RIN) numbers >8. cDNA library construction was performed by the Rockefeller University (RU) Genomic Core facility. Illumina NovaSeq 6000 SRX23799353 GSM8121010_r1 SRP435987 PRJNA967382 SRS20622370 GSM8121010 GSM8121010 RNA-Seq TRANSCRIPTOMIC cDNA To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, total RNA was collected in Trizol and purified using the Direct-zol RNA MiniPrep kit (Zymo Research) according to the manufacturer's instructions. DNase treatment was performed to remove genomic DNA (RNase-Free DNase Set, Qiagen). Sample quality was determined using an Agilent 2100 Bioanalyzer; all samples for sequencing had RNA integrity (RIN) numbers >8. cDNA library construction was performed by the Rockefeller University (RU) Genomic Core facility. Illumina NovaSeq 6000 SRX23799354 GSM8121011_r1 SRP435987 PRJNA967382 SRS20622369 GSM8121011 GSM8121011 RNA-Seq TRANSCRIPTOMIC cDNA To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, total RNA was collected in Trizol and purified using the Direct-zol RNA MiniPrep kit (Zymo Research) according to the manufacturer's instructions. DNase treatment was performed to remove genomic DNA (RNase-Free DNase Set, Qiagen). Sample quality was determined using an Agilent 2100 Bioanalyzer; all samples for sequencing had RNA integrity (RIN) numbers >8. cDNA library construction was performed by the Rockefeller University (RU) Genomic Core facility. Illumina NovaSeq 6000 SRX23799846 GSM8121012_r1 SRP435987 PRJNA967382 SRS20622856 GSM8121012 GSM8121012 OTHER GENOMIC other To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, cells were pelleted and CNR was performed as previously described in Skene et al., 2018 with minor modifications. Briefly, cells were crosslinked with 1% formaldehyde and quenched with glycine. After washes, nuclei were incubated with concanavalin-A beads, followed by antibody incubation overnight. ConA-bead-bound nuclei were incubated with MNase to cut DNA and the fragments were relaesed by CaCl2 addition. Sequencing libraries were generated using NEBNext Ultra II DNA Library Prep Kit for Illumina and NEBNext Multiplex Oligos for Illumina. PCR-amplified libraries were purified using 1× ratio of SPRI beads (Beckman) and eluted in 15 μl EB buffer (Qiagen). NextSeq 500 SRX23799847 GSM8121013_r1 SRP435987 PRJNA967382 SRS20622857 GSM8121013 GSM8121013 OTHER GENOMIC other To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, cells were pelleted and CNR was performed as previously described in Skene et al., 2018 with minor modifications. Briefly, cells were crosslinked with 1% formaldehyde and quenched with glycine. After washes, nuclei were incubated with concanavalin-A beads, followed by antibody incubation overnight. ConA-bead-bound nuclei were incubated with MNase to cut DNA and the fragments were relaesed by CaCl2 addition. Sequencing libraries were generated using NEBNext Ultra II DNA Library Prep Kit for Illumina and NEBNext Multiplex Oligos for Illumina. PCR-amplified libraries were purified using 1× ratio of SPRI beads (Beckman) and eluted in 15 μl EB buffer (Qiagen). NextSeq 500 SRX23799848 GSM8121014_r1 SRP435987 PRJNA967382 SRS20622858 GSM8121014 GSM8121014 OTHER GENOMIC other To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, cells were pelleted and CNR was performed as previously described in Skene et al., 2018 with minor modifications. Briefly, cells were crosslinked with 1% formaldehyde and quenched with glycine. After washes, nuclei were incubated with concanavalin-A beads, followed by antibody incubation overnight. ConA-bead-bound nuclei were incubated with MNase to cut DNA and the fragments were relaesed by CaCl2 addition. Sequencing libraries were generated using NEBNext Ultra II DNA Library Prep Kit for Illumina and NEBNext Multiplex Oligos for Illumina. PCR-amplified libraries were purified using 1× ratio of SPRI beads (Beckman) and eluted in 15 μl EB buffer (Qiagen). NextSeq 500 SRX23799849 GSM8121015_r1 SRP435987 PRJNA967382 SRS20622859 GSM8121015 GSM8121015 OTHER GENOMIC other To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, cells were pelleted and CNR was performed as previously described in Skene et al., 2018 with minor modifications. Briefly, cells were crosslinked with 1% formaldehyde and quenched with glycine. After washes, nuclei were incubated with concanavalin-A beads, followed by antibody incubation overnight. ConA-bead-bound nuclei were incubated with MNase to cut DNA and the fragments were relaesed by CaCl2 addition. Sequencing libraries were generated using NEBNext Ultra II DNA Library Prep Kit for Illumina and NEBNext Multiplex Oligos for Illumina. PCR-amplified libraries were purified using 1× ratio of SPRI beads (Beckman) and eluted in 15 μl EB buffer (Qiagen). NextSeq 500 SRX23799850 GSM8121016_r1 SRP435987 PRJNA967382 SRS20622860 GSM8121016 GSM8121016 OTHER GENOMIC other To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, cells were pelleted and CNR was performed as previously described in Skene et al., 2018 with minor modifications. Briefly, cells were crosslinked with 1% formaldehyde and quenched with glycine. After washes, nuclei were incubated with concanavalin-A beads, followed by antibody incubation overnight. ConA-bead-bound nuclei were incubated with MNase to cut DNA and the fragments were relaesed by CaCl2 addition. Sequencing libraries were generated using NEBNext Ultra II DNA Library Prep Kit for Illumina and NEBNext Multiplex Oligos for Illumina. PCR-amplified libraries were purified using 1× ratio of SPRI beads (Beckman) and eluted in 15 μl EB buffer (Qiagen). NextSeq 500 SRX23799897 GSM8120996_r1 SRP435987 PRJNA967382 SRS20622907 GSM8120996 GSM8120996 ATAC-seq GENOMIC other To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, cells were pelleted, lysed, and processed as described in Buenrostro et al., 2013. Libraries were prepared according to the manufacturer's guidelines (Illumina). Briefly cells were transposed with Tn5 transposase for 30 min and samples were barcoded. Illumina NovaSeq 6000 SRX23799898 GSM8120997_r1 SRP435987 PRJNA967382 SRS20622908 GSM8120997 GSM8120997 ATAC-seq GENOMIC other To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, cells were pelleted, lysed, and processed as described in Buenrostro et al., 2013. Libraries were prepared according to the manufacturer's guidelines (Illumina). Briefly cells were transposed with Tn5 transposase for 30 min and samples were barcoded. Illumina NovaSeq 6000 SRX23799899 GSM8120998_r1 SRP435987 PRJNA967382 SRS20622909 GSM8120998 GSM8120998 ATAC-seq GENOMIC other To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, cells were pelleted, lysed, and processed as described in Buenrostro et al., 2013. Libraries were prepared according to the manufacturer's guidelines (Illumina). Briefly cells were transposed with Tn5 transposase for 30 min and samples were barcoded. Illumina NovaSeq 6000 SRX23799900 GSM8120999_r1 SRP435987 PRJNA967382 SRS20622911 GSM8120999 GSM8120999 ATAC-seq GENOMIC other To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, cells were pelleted, lysed, and processed as described in Buenrostro et al., 2013. Libraries were prepared according to the manufacturer's guidelines (Illumina). Briefly cells were transposed with Tn5 transposase for 30 min and samples were barcoded. Illumina NovaSeq 6000 SRX23799901 GSM8121000_r1 SRP435987 PRJNA967382 SRS20622910 GSM8121000 GSM8121000 ATAC-seq GENOMIC other To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, cells were pelleted, lysed, and processed as described in Buenrostro et al., 2013. Libraries were prepared according to the manufacturer's guidelines (Illumina). Briefly cells were transposed with Tn5 transposase for 30 min and samples were barcoded. Illumina NovaSeq 6000 SRX23799902 GSM8121001_r1 SRP435987 PRJNA967382 SRS20622912 GSM8121001 GSM8121001 ATAC-seq GENOMIC other To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, cells were pelleted, lysed, and processed as described in Buenrostro et al., 2013. Libraries were prepared according to the manufacturer's guidelines (Illumina). Briefly cells were transposed with Tn5 transposase for 30 min and samples were barcoded. Illumina NovaSeq 6000 SRX23799903 GSM8121002_r1 SRP435987 PRJNA967382 SRS20622914 GSM8121002 GSM8121002 ATAC-seq GENOMIC other To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, cells were pelleted, lysed, and processed as described in Buenrostro et al., 2013. Libraries were prepared according to the manufacturer's guidelines (Illumina). Briefly cells were transposed with Tn5 transposase for 30 min and samples were barcoded. Illumina NovaSeq 6000 SRX23799904 GSM8121003_r1 SRP435987 PRJNA967382 SRS20622913 GSM8121003 GSM8121003 ATAC-seq GENOMIC other To resuspend HFSCs, 3D cultures were washed with sterile PBS, dissociated into single cell suspensions using TrpLE-Express (Gibco) for 15min at 37°C. After filtering, cells were pelleted, lysed, and processed as described in Buenrostro et al., 2013. Libraries were prepared according to the manufacturer's guidelines (Illumina). Briefly cells were transposed with Tn5 transposase for 30 min and samples were barcoded. Illumina NovaSeq 6000