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Series GSE158931 Query DataSets for GSE158931
Status Public on Oct 03, 2020
Title Evolution of regulatory signatures in primate cortical neurons at cell-type resolution [ChIP-Seq]
Organisms Macaca mulatta; Pan troglodytes
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The human cerebral cortex contains many cell types that likely underwent independent functional changes during evolution. However, cell-type–specific regulatory landscapes in the cortex re- main largely unexplored. Here we report epigenomic and tran- scriptomic analyses of the two main cortical neuronal subtypes, glutamatergic projection neurons and GABAergic interneurons, in human, chimpanzee, and rhesus macaque. Using genome- wide profiling of the H3K27ac histone modification, we identify neuron-subtype–specific regulatory elements that previously went undetected in bulk brain tissue samples. Human-specific regula- tory changes are uncovered in multiple genes, including those as- sociated with language, autism spectrum disorder, and drug addiction. We observe preferential evolutionary divergence in neuron subtype-specific regulatory elements and show that a sub- stantial fraction of pan-neuronal regulatory elements undergos subtype-specific evolutionary changes. This study sheds light on the interplay between regulatory evolution and cell- type–dependent gene-expression programs, and provides a re- source for further exploration of human brain evolution and function.
 
Overall design ChIP-seq Histone 3 Lysine 27 acetylation (H3K27ac) profiling was performed on sorted nuclei of glutamatergic and MGE-derived GABAergic neurons, obtained from prefrontal cortex of chimpanzees, rhesus macaques and humans.
Raw data (fastq) for human samples were taken from: Kozlenkov et al, 2018, Science Advances, 4(9):eaau6190
 
Contributor(s) Dracheva S, Kozlenkov A
Citation(s) 33109720
Submission date Oct 02, 2020
Last update date Dec 01, 2020
Contact name Stella Dracheva
E-mail(s) stella.dracheva@mssm.edu
Organization name Icahn School of Medicine at Mount Sinai
Department Dept. of Psychiatry
Street address James J. Peters VA Medical Center,130 W Kingsbridge Rd
City Bronx
State/province New York
ZIP/Postal code 10468
Country USA
 
Platforms (2)
GPL19129 Illumina HiSeq 2500 (Macaca mulatta)
GPL19148 Illumina HiSeq 2500 (Pan troglodytes)
Samples (32)
GSM4815984 ChBB.GLU
GSM4815985 ChBR.GLU
GSM4815986 ChET.GLU
This SubSeries is part of SuperSeries:
GSE158934 Evolution of regulatory signatures in primate cortical neurons at cell-type resolution
Relations
BioProject PRJNA667055
SRA SRP286185

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE158931_Glu_vs_MGE-GABA_differentially_acetylated_peaks_in_3_species.xlsx 49.7 Mb (ftp)(http) XLSX
GSE158931_Hu276_GLU_S2.bw 334.6 Mb (ftp)(http) BW
GSE158931_Hu276_SOX_S2.bw 298.8 Mb (ftp)(http) BW
GSE158931_Hu344_GLU_S4.bw 242.7 Mb (ftp)(http) BW
GSE158931_Hu344_SOX_S4.bw 273.3 Mb (ftp)(http) BW
GSE158931_Hu372_GLU_S2.bw 306.0 Mb (ftp)(http) BW
GSE158931_Hu372_SOX_S2.bw 268.6 Mb (ftp)(http) BW
GSE158931_Hu444_GLU_S3.bw 276.7 Mb (ftp)(http) BW
GSE158931_Hu444_SOX_S3.bw 307.5 Mb (ftp)(http) BW
GSE158931_Interspecies_differentially_acetylated_peaks_in_Glu_or_MGE-GABA.xlsx 25.9 Mb (ftp)(http) XLSX
GSE158931_Lists_of_peaks_detected_in_each_species_and_celltype.xlsx 15.0 Mb (ftp)(http) XLSX
GSE158931_RAW.tar 5.1 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file

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