 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on May 15, 2020 |
| Title |
Novel enhancer emerge with high interindividual variability and less frequently associate with disease |
| Organism |
Callithrix jacchus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Mutations in non-coding regulatory DNA such as enhancers underlie a wide variety of diseases including developmental disorders and cancer. As enhancers rapidly evolve, understanding their function and configuration in non-human disease models can have important clinical applications. Here, we analyze enhancer configurations in tissues isolated from the common marmoset, a widely used primate model for human disease. Integrating these data with human and mouse data, we find that enhancers containing trait-associated variants are preferentially conserved. In contrast, most human-specific enhancers are highly variable between individuals, with a subset failing to contact promoters. These are located further away from genes and more often reside in inactive B-compartments. Our data show that enhancers typically emerge as instable elements with minimal biological impact prior to their integration in a transcriptional program. Furthermore, our data provide insight into which trait variations in enhancers can be faithfully modeled using the common marmoset.
|
| |
|
| Overall design |
ChIP-sequencing for H3K27ac and H3K4me3 of marmoset tissue samples
|
| |
|
| Contributor(s) |
Castelijns B, Baak M, Geeven G, Vermunt MW, Wiggers CR, Timpanaro IS, Kondova I, de Laat W, Creyghton MP |
| Citation(s) |
32579926 |
| |
| Submission date |
Dec 06, 2019 |
| Last update date |
Aug 25, 2020 |
| Contact name |
Menno P Creyghton |
| E-mail(s) |
m.creyghton@hubrecht.eu
|
| Organization name |
Hubrecht Institute
|
| Lab |
Creyghton
|
| Street address |
Uppsalalaan 8
|
| City |
Utrecht |
| ZIP/Postal code |
3584 CT |
| Country |
Netherlands |
| |
|
| Platforms (2) |
| GPL17712 |
Illumina HiSeq 2000 (Callithrix jacchus) |
| GPL26636 |
Illumina NextSeq 500 (Callithrix jacchus) |
|
| Samples (39)
|
|
| Relations |
| BioProject |
PRJNA593966 |
| SRA |
SRP234929 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE141563_RAW.tar |
4.8 Gb |
(http)(custom) |
TAR (of BW, NARROWPEAK) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
|
|
|
|
 |
Less...
More...