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E-GEOD-67978 - Epigenomic annotation of gene regulatory alterations during evolution of the primate brain

Status
Released on 13 January 2016, last updated on 16 January 2016
Organism
Homo sapiens, Macaca mulatta, Mus musculus, Pan troglodytes
Samples (98)
Protocols (6)
Description
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. 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).
Experiment type
ChIP-seq 
Contacts
Menno P Creyghton <m.creyghton@hubrecht.eu>, Bas Castelijns, Edwin Cuppen, Ewart de Bruijn, Geert Geeven, Ivanela Kondova, Marit W Vermunt, Menno P Creygthon, Peter Reinink, Ronald Bontrop, Sander C Tan, Stephan Persengiev, Wouter de Laat
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-GEOD-67978.idf.txt
Sample and data relationshipE-GEOD-67978.sdrf.txt
Processed data (79)Click to browse processed data
Links