SRX3375178 GSM2845359 SRP124611 SRS2671607 GSM2845359 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845359 GSM2845359 GEO Accession GSM2845359 SRX3375179 GSM2845360 SRP124611 SRS2671608 GSM2845360 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845360 GSM2845360 GEO Accession GSM2845360 SRX3375180 GSM2845361 SRP124611 SRS2671606 GSM2845361 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845361 GSM2845361 GEO Accession GSM2845361 SRX3375181 GSM2845362 SRP124611 SRS2671609 GSM2845362 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845362 GSM2845362 GEO Accession GSM2845362 SRX3375182 GSM2845363 SRP124611 SRS2671610 GSM2845363 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845363 GSM2845363 GEO Accession GSM2845363 SRX3375183 GSM2845364 SRP124611 SRS2671611 GSM2845364 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845364 GSM2845364 GEO Accession GSM2845364 SRX3375184 GSM2845365 SRP124611 SRS2671617 GSM2845365 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845365 GSM2845365 GEO Accession GSM2845365 SRX3375185 GSM2845366 SRP124611 SRS2671616 GSM2845366 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845366 GSM2845366 GEO Accession GSM2845366 SRX3375186 GSM2845367 SRP124611 SRS2671619 GSM2845367 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845367 GSM2845367 GEO Accession GSM2845367 SRX3375187 GSM2845368 SRP124611 SRS2671612 GSM2845368 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845368 GSM2845368 GEO Accession GSM2845368 SRX3375188 GSM2845369 SRP124611 SRS2671613 GSM2845369 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845369 GSM2845369 GEO Accession GSM2845369 SRX3375189 GSM2845370 SRP124611 SRS2671614 GSM2845370 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845370 GSM2845370 GEO Accession GSM2845370 SRX3375190 GSM2845371 SRP124611 SRS2671615 GSM2845371 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845371 GSM2845371 GEO Accession GSM2845371 SRX3375191 GSM2845372 SRP124611 SRS2671618 GSM2845372 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845372 GSM2845372 GEO Accession GSM2845372 SRX3375192 GSM2845373 SRP124611 SRS2671620 GSM2845373 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845373 GSM2845373 GEO Accession GSM2845373 SRX3375193 GSM2845374 SRP124611 SRS2671621 GSM2845374 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845374 GSM2845374 GEO Accession GSM2845374 SRX3375194 GSM2845375 SRP124611 SRS2671624 GSM2845375 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845375 GSM2845375 GEO Accession GSM2845375 SRX3375195 GSM2845376 SRP124611 SRS2671622 GSM2845376 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845376 GSM2845376 GEO Accession GSM2845376 SRX3375196 GSM2845377 SRP124611 SRS2671623 GSM2845377 RNA-Seq TRANSCRIPTOMIC cDNA Mouse brains (postnatal 6-10 weeks) were rapidly resected on ice. Cortices were freshly processed or flash frozen in liquid nitrogen for 2 minutes and subsequently kept at -80°C before nuclear isolation. Briefly, 14 mL of sucrose cushion was added to the bottom of centrifuge tubes (Beckman Coulter). Using a glass homogenizer (Wheaton), a freshly isolated or frozen mouse cortex sample was subjected to dounce homogenization (21 times with loose pestle followed by 7 times with tight pestle) in 12 mL of homogenization buffer. For in vitro cultured cells, cell pellets (~5 million cells) were resuspended in homogenization buffer and dounced 20 times with a loose pestle. Homogenates (~12 mL) were layered onto the sucrose cushion in the centrifuge tubes, and 10 mL of homogenization buffer was added atop of the homogenates. The tubes were then centrifuged in a Beckman Coulter L7-65 Ultracentrifuge at 25,000 rpm at 4°C for 2 hours using a Beckman Coulter SW28 swinging bucket rotor (Beckman Coulter). The supernatant was carefully removed via aspiration. 1 mL of chilled DPBS with protease and RNase inhibitor (Lucigen) was added to resuspend the nuclear pellet, and nuclei were subsequently transferred to a 1.5-mL tube. Nuclei were pelleted at 5,000 rpm for 10 min at 4°C, and then resuspended in 0.01% BSA (Sigma-Aldrich) in DPBS. After resuspension, nuclei were filtered through a 40-μm cell strainer (Fisher Scientific), visually inspected for morphology and quality assurance, and counted using a Fuchs-Rosenthal counting chamber before droplet microfluidic encapsulation. Single cell or nucleus RNA sequencing was performed using the Drop-Seq method. Briefly, single cells, polyA-containing barcoded beads (ChemGenes), and droplet generation oil (Bio-Rad) were each flowed into individual input ports on a microfluidic device (uFluidix). Cells in droplets were lysed and hybridized to beads. Beads were isolated and subjected to reverse transcription (Thermo Fisher) and exonuclease I (NEB) treatment, followed by PCR of full length transcripts (Kapa). Final libraries were created by tagmentation of cDNA (Illumina), and amplified by PCR and purified by SPRI beads. NextSeq 500 gds 302845377 GSM2845377 GEO Accession GSM2845377