|
| Status |
Public on Feb 13, 2014 |
| Title |
Extensive Evolutionary Changes in Regulatory Element Activity during Human Origins Are Associated with Altered Gene Expression and Positive Selection [DGE-seq] |
| Organisms |
Macaca mulatta; Pan troglodytes; Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
The human genome shares a remarkable amount of genomic sequence with our closest living primate relatives. Researchers have long sought to understand what regions of the genome are responsible for unique species-specific traits. Previous studies have shown that many genes are differentially expressed between species, but the regulatory elements contributing to these differences are largely unknown. Here we report a genome-wide comparison of active gene regulatory elements in human, chimpanzee, and macaque, and we identify hundreds of regulatory elements that have been gained or lost in the human or chimpanzee genomes since their evolutionary divergence. These elements contain evidence of natural selection and correlate with species-specific changes in gene expression. Polymorphic DNA bases in transcription factor motifs that we found in these regulatory elements may be responsible for the varied biological functions across species. This study directly links phenotypic and transcriptional differences between species with changes in chromatin structure.
|
| |
|
| Overall design |
DGE-seq
|
| |
|
| Contributor(s) |
Shibata Y, Crawford G |
| Citation(s) |
22761590 |
| |
| Submission date |
Feb 12, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Yoichiro Shibata |
| E-mail(s) |
yoichiro.shibata@gmail.com
|
| Organization name |
Duke University
|
| Department |
Inst. of Genome Sciences and Policy
|
| Lab |
Greg Crawford
|
| Street address |
101 Science Dr
|
| City |
Durham |
| State/province |
NC |
| ZIP/Postal code |
27708 |
| Country |
USA |
| |
|
| Platforms (3) |
| GPL10999 |
Illumina Genome Analyzer IIx (Homo sapiens) |
| GPL13766 |
Illumina Genome Analyzer IIx (Macaca mulatta) |
| GPL13802 |
Illumina Genome Analyzer IIx (Pan troglodytes) |
|
| Samples (15)
|
|
| This SubSeries is part of SuperSeries: |
| GSE54908 |
Extensive Evolutionary Changes in Regulatory Element Activity during Human Origins Are Associated with Altered Gene Expression and Positive Selection |
|
| Relations |
| BioProject |
PRJNA238022 |
| SRA |
SRP037719 |
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