Recombinant:Article Title: Human prefrontal cortex gene regulatory dynamics from gestation to adulthood at single-cell resolution.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies mouse anti-MAP-2 Millipore Cat# AB5622; RRID: AB_91939 rabbit anti-GFAP Dako Cat# ZO33429-2; RRID: AB_10013482 APC-linked mouse anti-NeuN Novus Biologicals Cat# NBP1-92693APC; RRID: AB_2894834 AlexaFluor 555, goat anti-mouse IgG (H&L) Abcam Cat# ab150114; RRID: AB_2687594 AlexaDluor 647, donkey anti-rabbit IgG (H&L) Abcam Cat# ab150063; RRID: AB_2687541 Chemicals, peptides, and recombinant proteins Essential 8 medium Thermo Fisher Cat# A1517001 Y-27632 2HCl Selleckchem Cat# S1049 DMEM/F12 medium Thermo Fisher Cat# 11320033 Neurobasal medium Thermo Fisher Cat# 21103049 N2 MAX Media Supplement (100x) R&D Systems Cat# AR009 MACS NeuroBrew-21 Miltenyi Biotec Cat# 130-093-566 MEM Non-Essential Amino Acids Solution (100x) Thermo Fisher Cat# 11140050 GlutaMAX Supplement Thermo Fisher Cat# 35050061 Penicillin-Streptomycin (10,000 U/ml) Thermo Fisher Cat# 15140122 Heparin Sigma Cat# H3149 LDN-193189 Cayman Chemical Cat# 19396 A83-01 Cayman Chemical Cat# 9001799 IWR-1-endo Adooq Bioscience Cat# A12737 Cultrex 3D RGF BME R&D Systems Cat# 3445-005-001 MACS NeuroBrew-21 w/o Vitamin A Miltenyi Biotec Cat# 130-097-263 Insulin solution human Sigma Cat# I9278 DAPI Cayman Chemical Cat# 14285 RNAsin Plus RNAse inhibitor Promega Cat# N2615 Critical commercial assays Chromium Single cell 30 GEM, Library & Gel Bead Kit v3 10x Genomics PN: 1000075 ATAC-seq NextGEM kit 10x Genomics PN: 1000175 Experimental models: Cell lines Human: Passage 40 H9 ES cells (WA09 cell line) WiCell RRID: CVCL_9773 Deposited data snRNA-seq, snATAC-seq This study GEO: GSE168408 Bulk RNA-seq Li et al., 2018 http://development.psychencode.org scRNA-seq data Velmeshev et al., 2019 https://autism.cells.ucsc.edu Software and algorithms Original code used for data analysis This paper https://doi.org/10.5281/zenodo.7113422 ImageJ (Fiji) Schindelin et al., 2012 https://imagej.net/software/fiji Genome assembly Genome Reference Consortium https://www.ncbi.nlm.nih.gov/grc/human (hg19/GrChr37.p13) Gene annotation Harrow et al., 2012 https://www.gencodegenes.org/ human/release_19.html (Continued on next page) e1 Cell 185, 4428–4447.e1–e14, November 10, 2022
Magnetic Cell Separation:Article Title: Human prefrontal cortex gene regulatory dynamics from gestation to adulthood at single-cell resolution.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies mouse anti-MAP-2 Millipore Cat# AB5622; RRID: AB_91939 rabbit anti-GFAP Dako Cat# ZO33429-2; RRID: AB_10013482 APC-linked mouse anti-NeuN Novus Biologicals Cat# NBP1-92693APC; RRID: AB_2894834 AlexaFluor 555, goat anti-mouse IgG (H&L) Abcam Cat# ab150114; RRID: AB_2687594 AlexaDluor 647, donkey anti-rabbit IgG (H&L) Abcam Cat# ab150063; RRID: AB_2687541 Chemicals, peptides, and recombinant proteins Essential 8 medium Thermo Fisher Cat# A1517001 Y-27632 2HCl Selleckchem Cat# S1049 DMEM/F12 medium Thermo Fisher Cat# 11320033 Neurobasal medium Thermo Fisher Cat# 21103049 N2 MAX Media Supplement (100x) R&D Systems Cat# AR009 MACS NeuroBrew-21 Miltenyi Biotec Cat# 130-093-566 MEM Non-Essential Amino Acids Solution (100x) Thermo Fisher Cat# 11140050 GlutaMAX Supplement Thermo Fisher Cat# 35050061 Penicillin-Streptomycin (10,000 U/ml) Thermo Fisher Cat# 15140122 Heparin Sigma Cat# H3149 LDN-193189 Cayman Chemical Cat# 19396 A83-01 Cayman Chemical Cat# 9001799 IWR-1-endo Adooq Bioscience Cat# A12737 Cultrex 3D RGF BME R&D Systems Cat# 3445-005-001 MACS NeuroBrew-21 w/o Vitamin A Miltenyi Biotec Cat# 130-097-263 Insulin solution human Sigma Cat# I9278 DAPI Cayman Chemical Cat# 14285 RNAsin Plus RNAse inhibitor Promega Cat# N2615 Critical commercial assays Chromium Single cell 30 GEM, Library & Gel Bead Kit v3 10x Genomics PN: 1000075 ATAC-seq NextGEM kit 10x Genomics PN: 1000175 Experimental models: Cell lines Human: Passage 40 H9 ES cells (WA09 cell line) WiCell RRID: CVCL_9773 Deposited data snRNA-seq, snATAC-seq This study GEO: GSE168408 Bulk RNA-seq Li et al., 2018 http://development.psychencode.org scRNA-seq data Velmeshev et al., 2019 https://autism.cells.ucsc.edu Software and algorithms Original code used for data analysis This paper https://doi.org/10.5281/zenodo.7113422 ImageJ (Fiji) Schindelin et al., 2012 https://imagej.net/software/fiji Genome assembly Genome Reference Consortium https://www.ncbi.nlm.nih.gov/grc/human (hg19/GrChr37.p13) Gene annotation Harrow et al., 2012 https://www.gencodegenes.org/ human/release_19.html (Continued on next page) e1 Cell 185, 4428–4447.e1–e14, November 10, 2022
RNA Sequencing Assay:Article Title: Human prefrontal cortex gene regulatory dynamics from gestation to adulthood at single-cell resolution.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies mouse anti-MAP-2 Millipore Cat# AB5622; RRID: AB_91939 rabbit anti-GFAP Dako Cat# ZO33429-2; RRID: AB_10013482 APC-linked mouse anti-NeuN Novus Biologicals Cat# NBP1-92693APC; RRID: AB_2894834 AlexaFluor 555, goat anti-mouse IgG (H&L) Abcam Cat# ab150114; RRID: AB_2687594 AlexaDluor 647, donkey anti-rabbit IgG (H&L) Abcam Cat# ab150063; RRID: AB_2687541 Chemicals, peptides, and recombinant proteins Essential 8 medium Thermo Fisher Cat# A1517001 Y-27632 2HCl Selleckchem Cat# S1049 DMEM/F12 medium Thermo Fisher Cat# 11320033 Neurobasal medium Thermo Fisher Cat# 21103049 N2 MAX Media Supplement (100x) R&D Systems Cat# AR009 MACS NeuroBrew-21 Miltenyi Biotec Cat# 130-093-566 MEM Non-Essential Amino Acids Solution (100x) Thermo Fisher Cat# 11140050 GlutaMAX Supplement Thermo Fisher Cat# 35050061 Penicillin-Streptomycin (10,000 U/ml) Thermo Fisher Cat# 15140122 Heparin Sigma Cat# H3149 LDN-193189 Cayman Chemical Cat# 19396 A83-01 Cayman Chemical Cat# 9001799 IWR-1-endo Adooq Bioscience Cat# A12737 Cultrex 3D RGF BME R&D Systems Cat# 3445-005-001 MACS NeuroBrew-21 w/o Vitamin A Miltenyi Biotec Cat# 130-097-263 Insulin solution human Sigma Cat# I9278 DAPI Cayman Chemical Cat# 14285 RNAsin Plus RNAse inhibitor Promega Cat# N2615 Critical commercial assays Chromium Single cell 30 GEM, Library & Gel Bead Kit v3 10x Genomics PN: 1000075 ATAC-seq NextGEM kit 10x Genomics PN: 1000175 Experimental models: Cell lines Human: Passage 40 H9 ES cells (WA09 cell line) WiCell RRID: CVCL_9773 Deposited data snRNA-seq, snATAC-seq This study GEO: GSE168408 Bulk RNA-seq Li et al., 2018 http://development.psychencode.org scRNA-seq data Velmeshev et al., 2019 https://autism.cells.ucsc.edu Software and algorithms Original code used for data analysis This paper https://doi.org/10.5281/zenodo.7113422 ImageJ (Fiji) Schindelin et al., 2012 https://imagej.net/software/fiji Genome assembly Genome Reference Consortium https://www.ncbi.nlm.nih.gov/grc/human (hg19/GrChr37.p13) Gene annotation Harrow et al., 2012 https://www.gencodegenes.org/ human/release_19.html (Continued on next page) e1 Cell 185, 4428–4447.e1–e14, November 10, 2022
Software:Article Title: Human prefrontal cortex gene regulatory dynamics from gestation to adulthood at single-cell resolution.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies mouse anti-MAP-2 Millipore Cat# AB5622; RRID: AB_91939 rabbit anti-GFAP Dako Cat# ZO33429-2; RRID: AB_10013482 APC-linked mouse anti-NeuN Novus Biologicals Cat# NBP1-92693APC; RRID: AB_2894834 AlexaFluor 555, goat anti-mouse IgG (H&L) Abcam Cat# ab150114; RRID: AB_2687594 AlexaDluor 647, donkey anti-rabbit IgG (H&L) Abcam Cat# ab150063; RRID: AB_2687541 Chemicals, peptides, and recombinant proteins Essential 8 medium Thermo Fisher Cat# A1517001 Y-27632 2HCl Selleckchem Cat# S1049 DMEM/F12 medium Thermo Fisher Cat# 11320033 Neurobasal medium Thermo Fisher Cat# 21103049 N2 MAX Media Supplement (100x) R&D Systems Cat# AR009 MACS NeuroBrew-21 Miltenyi Biotec Cat# 130-093-566 MEM Non-Essential Amino Acids Solution (100x) Thermo Fisher Cat# 11140050 GlutaMAX Supplement Thermo Fisher Cat# 35050061 Penicillin-Streptomycin (10,000 U/ml) Thermo Fisher Cat# 15140122 Heparin Sigma Cat# H3149 LDN-193189 Cayman Chemical Cat# 19396 A83-01 Cayman Chemical Cat# 9001799 IWR-1-endo Adooq Bioscience Cat# A12737 Cultrex 3D RGF BME R&D Systems Cat# 3445-005-001 MACS NeuroBrew-21 w/o Vitamin A Miltenyi Biotec Cat# 130-097-263 Insulin solution human Sigma Cat# I9278 DAPI Cayman Chemical Cat# 14285 RNAsin Plus RNAse inhibitor Promega Cat# N2615 Critical commercial assays Chromium Single cell 30 GEM, Library & Gel Bead Kit v3 10x Genomics PN: 1000075 ATAC-seq NextGEM kit 10x Genomics PN: 1000175 Experimental models: Cell lines Human: Passage 40 H9 ES cells (WA09 cell line) WiCell RRID: CVCL_9773 Deposited data snRNA-seq, snATAC-seq This study GEO: GSE168408 Bulk RNA-seq Li et al., 2018 http://development.psychencode.org scRNA-seq data Velmeshev et al., 2019 https://autism.cells.ucsc.edu Software and algorithms Original code used for data analysis This paper https://doi.org/10.5281/zenodo.7113422 ImageJ (Fiji) Schindelin et al., 2012 https://imagej.net/software/fiji Genome assembly Genome Reference Consortium https://www.ncbi.nlm.nih.gov/grc/human (hg19/GrChr37.p13) Gene annotation Harrow et al., 2012 https://www.gencodegenes.org/ human/release_19.html (Continued on next page) e1 Cell 185, 4428–4447.e1–e14, November 10, 2022
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