SRX18672585 GSM6824674_r1 SRP412863 PRJNA911753 SRS16116091 GSM6824674 GSM6824674 ChIP-Seq GENOMIC ChIP 10x10^6 million microglia cells were fixed with 1% formaldehyde/PBS followed by quenching with 0.125 M glycine. After washing with cold PBS, pellet was resuspended in swelling buffer, cytosol was removed and nuclei sonicated. Lysates were cleared and 2-8 microgram of chromatin were incubated with corresponding amounts of antibody overnight at 4°C. The next day, chromatin was captured with Protein A/G beads, washed and eluted with TE buffer, 1% SDS, 100 mM NaCl. 0.5 mg/ml Proteinase K were added, and samples were incubated for 2 h at 55°C and overnight at 65°C. The next day, RNA was digested. Supernatant was removed from the magnetic beads and DNA was purified with AMpure beads XP clean up according to manufacturer's instructions. ChIP libraries were prepared using NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® (NEB) and NEBNext® Multiplex Oligos for Illumina® (96 Unique Dual Index Primer Pairs) (NEB) according to manufacturer's instructions. Illumina NovaSeq 6000 SRX18672586 GSM6824675_r1 SRP412863 PRJNA911753 SRS16116092 GSM6824675 GSM6824675 ChIP-Seq GENOMIC ChIP 10x10^6 million microglia cells were fixed with 1% formaldehyde/PBS followed by quenching with 0.125 M glycine. After washing with cold PBS, pellet was resuspended in swelling buffer, cytosol was removed and nuclei sonicated. Lysates were cleared and 2-8 microgram of chromatin were incubated with corresponding amounts of antibody overnight at 4°C. The next day, chromatin was captured with Protein A/G beads, washed and eluted with TE buffer, 1% SDS, 100 mM NaCl. 0.5 mg/ml Proteinase K were added, and samples were incubated for 2 h at 55°C and overnight at 65°C. The next day, RNA was digested. Supernatant was removed from the magnetic beads and DNA was purified with AMpure beads XP clean up according to manufacturer's instructions. ChIP libraries were prepared using NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® (NEB) and NEBNext® Multiplex Oligos for Illumina® (96 Unique Dual Index Primer Pairs) (NEB) according to manufacturer's instructions. Illumina NovaSeq 6000 SRX18672587 GSM6824676_r1 SRP412863 PRJNA911753 SRS16116093 GSM6824676 GSM6824676 ChIP-Seq GENOMIC ChIP 10x10^6 million microglia cells were fixed with 1% formaldehyde/PBS followed by quenching with 0.125 M glycine. After washing with cold PBS, pellet was resuspended in swelling buffer, cytosol was removed and nuclei sonicated. Lysates were cleared and 2-8 microgram of chromatin were incubated with corresponding amounts of antibody overnight at 4°C. The next day, chromatin was captured with Protein A/G beads, washed and eluted with TE buffer, 1% SDS, 100 mM NaCl. 0.5 mg/ml Proteinase K were added, and samples were incubated for 2 h at 55°C and overnight at 65°C. The next day, RNA was digested. Supernatant was removed from the magnetic beads and DNA was purified with AMpure beads XP clean up according to manufacturer's instructions. ChIP libraries were prepared using NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® (NEB) and NEBNext® Multiplex Oligos for Illumina® (96 Unique Dual Index Primer Pairs) (NEB) according to manufacturer's instructions. Illumina NovaSeq 6000 SRX18672588 GSM6824677_r1 SRP412863 PRJNA911753 SRS16116094 GSM6824677 GSM6824677 ChIP-Seq GENOMIC ChIP 10x10^6 million microglia cells were fixed with 1% formaldehyde/PBS followed by quenching with 0.125 M glycine. After washing with cold PBS, pellet was resuspended in swelling buffer, cytosol was removed and nuclei sonicated. Lysates were cleared and 2-8 microgram of chromatin were incubated with corresponding amounts of antibody overnight at 4°C. The next day, chromatin was captured with Protein A/G beads, washed and eluted with TE buffer, 1% SDS, 100 mM NaCl. 0.5 mg/ml Proteinase K were added, and samples were incubated for 2 h at 55°C and overnight at 65°C. The next day, RNA was digested. Supernatant was removed from the magnetic beads and DNA was purified with AMpure beads XP clean up according to manufacturer's instructions. ChIP libraries were prepared using NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® (NEB) and NEBNext® Multiplex Oligos for Illumina® (96 Unique Dual Index Primer Pairs) (NEB) according to manufacturer's instructions. Illumina NovaSeq 6000 SRX18672589 GSM6824678_r1 SRP412863 PRJNA911753 SRS16116095 GSM6824678 GSM6824678 ChIP-Seq GENOMIC ChIP 10x10^6 million microglia cells were fixed with 1% formaldehyde/PBS followed by quenching with 0.125 M glycine. After washing with cold PBS, pellet was resuspended in swelling buffer, cytosol was removed and nuclei sonicated. Lysates were cleared and 2-8 microgram of chromatin were incubated with corresponding amounts of antibody overnight at 4°C. The next day, chromatin was captured with Protein A/G beads, washed and eluted with TE buffer, 1% SDS, 100 mM NaCl. 0.5 mg/ml Proteinase K were added, and samples were incubated for 2 h at 55°C and overnight at 65°C. The next day, RNA was digested. Supernatant was removed from the magnetic beads and DNA was purified with AMpure beads XP clean up according to manufacturer's instructions. ChIP libraries were prepared using NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® (NEB) and NEBNext® Multiplex Oligos for Illumina® (96 Unique Dual Index Primer Pairs) (NEB) according to manufacturer's instructions. Illumina NovaSeq 6000 SRX18672590 GSM6824679_r1 SRP412863 PRJNA911753 SRS16116096 GSM6824679 GSM6824679 ChIP-Seq GENOMIC ChIP 10x10^6 million microglia cells were fixed with 1% formaldehyde/PBS followed by quenching with 0.125 M glycine. After washing with cold PBS, pellet was resuspended in swelling buffer, cytosol was removed and nuclei sonicated. Lysates were cleared and 2-8 microgram of chromatin were incubated with corresponding amounts of antibody overnight at 4°C. The next day, chromatin was captured with Protein A/G beads, washed and eluted with TE buffer, 1% SDS, 100 mM NaCl. 0.5 mg/ml Proteinase K were added, and samples were incubated for 2 h at 55°C and overnight at 65°C. The next day, RNA was digested. Supernatant was removed from the magnetic beads and DNA was purified with AMpure beads XP clean up according to manufacturer's instructions. ChIP libraries were prepared using NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® (NEB) and NEBNext® Multiplex Oligos for Illumina® (96 Unique Dual Index Primer Pairs) (NEB) according to manufacturer's instructions. Illumina NovaSeq 6000 SRX18672591 GSM6824680_r1 SRP412863 PRJNA911753 SRS16116097 GSM6824680 GSM6824680 ChIP-Seq GENOMIC ChIP 10x10^6 million microglia cells were fixed with 1% formaldehyde/PBS followed by quenching with 0.125 M glycine. After washing with cold PBS, pellet was resuspended in swelling buffer, cytosol was removed and nuclei sonicated. Lysates were cleared and 2-8 microgram of chromatin were incubated with corresponding amounts of antibody overnight at 4°C. The next day, chromatin was captured with Protein A/G beads, washed and eluted with TE buffer, 1% SDS, 100 mM NaCl. 0.5 mg/ml Proteinase K were added, and samples were incubated for 2 h at 55°C and overnight at 65°C. The next day, RNA was digested. Supernatant was removed from the magnetic beads and DNA was purified with AMpure beads XP clean up according to manufacturer's instructions. ChIP libraries were prepared using NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® (NEB) and NEBNext® Multiplex Oligos for Illumina® (96 Unique Dual Index Primer Pairs) (NEB) according to manufacturer's instructions. Illumina NovaSeq 6000 SRX18672592 GSM6824681_r1 SRP412863 PRJNA911753 SRS16116098 GSM6824681 GSM6824681 ChIP-Seq GENOMIC ChIP 10x10^6 million microglia cells were fixed with 1% formaldehyde/PBS followed by quenching with 0.125 M glycine. After washing with cold PBS, pellet was resuspended in swelling buffer, cytosol was removed and nuclei sonicated. Lysates were cleared and 2-8 microgram of chromatin were incubated with corresponding amounts of antibody overnight at 4°C. The next day, chromatin was captured with Protein A/G beads, washed and eluted with TE buffer, 1% SDS, 100 mM NaCl. 0.5 mg/ml Proteinase K were added, and samples were incubated for 2 h at 55°C and overnight at 65°C. The next day, RNA was digested. Supernatant was removed from the magnetic beads and DNA was purified with AMpure beads XP clean up according to manufacturer's instructions. ChIP libraries were prepared using NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® (NEB) and NEBNext® Multiplex Oligos for Illumina® (96 Unique Dual Index Primer Pairs) (NEB) according to manufacturer's instructions. Illumina NovaSeq 6000 SRX18672593 GSM6824682_r1 SRP412863 PRJNA911753 SRS16116099 GSM6824682 GSM6824682 ChIP-Seq GENOMIC ChIP 10x10^6 million microglia cells were fixed with 1% formaldehyde/PBS followed by quenching with 0.125 M glycine. After washing with cold PBS, pellet was resuspended in swelling buffer, cytosol was removed and nuclei sonicated. Lysates were cleared and 2-8 microgram of chromatin were incubated with corresponding amounts of antibody overnight at 4°C. The next day, chromatin was captured with Protein A/G beads, washed and eluted with TE buffer, 1% SDS, 100 mM NaCl. 0.5 mg/ml Proteinase K were added, and samples were incubated for 2 h at 55°C and overnight at 65°C. The next day, RNA was digested. Supernatant was removed from the magnetic beads and DNA was purified with AMpure beads XP clean up according to manufacturer's instructions. ChIP libraries were prepared using NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® (NEB) and NEBNext® Multiplex Oligos for Illumina® (96 Unique Dual Index Primer Pairs) (NEB) according to manufacturer's instructions. Illumina NovaSeq 6000 SRX18672594 GSM6824683_r1 SRP412863 PRJNA911753 SRS16116100 GSM6824683 GSM6824683 ChIP-Seq GENOMIC ChIP 10x10^6 million microglia cells were fixed with 1% formaldehyde/PBS followed by quenching with 0.125 M glycine. After washing with cold PBS, pellet was resuspended in swelling buffer, cytosol was removed and nuclei sonicated. Lysates were cleared and 2-8 microgram of chromatin were incubated with corresponding amounts of antibody overnight at 4°C. The next day, chromatin was captured with Protein A/G beads, washed and eluted with TE buffer, 1% SDS, 100 mM NaCl. 0.5 mg/ml Proteinase K were added, and samples were incubated for 2 h at 55°C and overnight at 65°C. The next day, RNA was digested. Supernatant was removed from the magnetic beads and DNA was purified with AMpure beads XP clean up according to manufacturer's instructions. ChIP libraries were prepared using NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® (NEB) and NEBNext® Multiplex Oligos for Illumina® (96 Unique Dual Index Primer Pairs) (NEB) according to manufacturer's instructions. Illumina NovaSeq 6000 SRX18672595 GSM6824684_r1 SRP412863 PRJNA911753 SRS16116101 GSM6824684 GSM6824684 ChIP-Seq GENOMIC ChIP 10x10^6 million microglia cells were fixed with 1% formaldehyde/PBS followed by quenching with 0.125 M glycine. After washing with cold PBS, pellet was resuspended in swelling buffer, cytosol was removed and nuclei sonicated. Lysates were cleared and 2-8 microgram of chromatin were incubated with corresponding amounts of antibody overnight at 4°C. The next day, chromatin was captured with Protein A/G beads, washed and eluted with TE buffer, 1% SDS, 100 mM NaCl. 0.5 mg/ml Proteinase K were added, and samples were incubated for 2 h at 55°C and overnight at 65°C. The next day, RNA was digested. Supernatant was removed from the magnetic beads and DNA was purified with AMpure beads XP clean up according to manufacturer's instructions. ChIP libraries were prepared using NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® (NEB) and NEBNext® Multiplex Oligos for Illumina® (96 Unique Dual Index Primer Pairs) (NEB) according to manufacturer's instructions. Illumina NovaSeq 6000