GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE67978 Query DataSets for GSE67978
Status Public on Jan 13, 2016
Title Epigenomic annotation of gene regulatory alterations during evolution of the primate brain
Organisms Macaca mulatta; Pan troglodytes; Homo sapiens; Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary While genome sequencing has identified numerous non-coding alterations between primate species, which of these are regulatory and potentially relevant to the evolution of the human brain is unclear. Here, we annotate cis-regulatory elements (CREs) in the human, rhesus macaque and chimpanzee genome using ChIP-sequencing in different anatomical parts of the adult brain. We find high similarity in the genomic positioning of CREs between rhesus macaque and humans, suggesting that the majority of these elements were already present in a common ancestor 25 million years ago. Most of the observed regulatory changes between humans and rhesus macaque occurred prior to the ancestral separation of humans and chimpanzee, leaving a modest set of regulatory elements with predicted human-specificity. Our data refine previous predictions and hypotheses on the consequences of genomic changes between primate species, and allow the identification of regulatory alterations relevant to the evolution of the brain.
Overall design ChIP-Sequencing for H3K27ac on 8 distinct brain regions from human (three biological replicates per brain region), chimpanzee (two biological replicates per brain region) and rhesus macaque (three biological replicates per brain region).
Contributor(s) Vermunt MW, Tan SC, Castelijns B, Geeven G, Reinink P, de Bruijn E, Kondova I, Persengiev S, Bontrop R, Cuppen E, de Laat W, Creygthon MP
Citation(s) 26807951
Submission date Apr 16, 2015
Last update date May 15, 2019
Contact name Menno P Creyghton
Organization name Hubrecht Institute
Lab Creyghton
Street address Uppsalalaan 8
City Utrecht
ZIP/Postal code 3584 CT
Country Netherlands
Platforms (8)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL14954 Illumina HiSeq 2000 (Macaca mulatta)
Samples (98)
GSM1660004 H3K27ac Rhesus Brain OccipitalPole RM1
GSM1660005 H3K27ac Rhesus Brain OccipitalPole RM2
GSM1660006 H3K27ac Rhesus Brain OccipitalPole RM3
BioProject PRJNA281420
SRA SRP057277

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
GSE67978_RAW.tar 25.5 Gb (http)(custom) TAR (of BEDGRAPH, BW, NARROWPEAK, TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap