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| Status |
Public on Jan 06, 2012 |
| Title |
X-chromosome hyperactivation in mammals via nonlinear relationships between chromatin states and transcription |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Dosage compensation in mammals occurs at two levels. In addition to balancing X-chromosome dosage between males and females via X-inactivation, mammals also balance dosage of Xs and autosomes. It has been proposed that X-autosome equalization occurs by upregulation of Xa (active X). To investigate the mechanism, we perform allele-specific ChIP-seq for chromatin epitopes and analyze RNA-seq data (SRA010053). The hypertranscribed Xa demonstrates enrichment of active chromatin marks relative to autosomes. We derive predictive models for relationships among Pol II, active mark densities and gene expression, and we suggest that Xa upregulation involves increased transcription initiation and elongation. Enrichment of active marks on Xa does not scale proportionally with transcription output, a disparity explained by nonlinear quantitative dependencies among active histone marks, Pol II occupancy and transcription. Notably, the trend of nonlinear upregulation also occurs on autosomes. Thus, Xa upregulation involves combined increases of active histone marks and Pol II occupancy, without invoking X-specific dependencies between chromatin states and transcription.
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| |
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| Overall design |
Examination of 4 marks of active transcription (H3K4me3, H3K36me3, POL-II-S2P, POL-II-S5P) in a transformed female mouse embryonic fibroblast cell line (EY.T4).
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| |
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| Contributor(s) |
Yildirim E, Sadreyev RI, Pinter SF, Lee JT |
| Citation(s) |
22139016 |
| Submission date |
Nov 18, 2011 |
| Last update date |
Jul 22, 2022 |
| Contact name |
Ruslan Sadreyev |
| E-mail(s) |
rsadreyev@mgh.harvard.edu
|
| Phone |
6176435697
|
| Organization name |
Harvard Medical School/ Mass General Hospital
|
| Street address |
185 Cambridge St
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02114 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL9250 |
Illumina Genome Analyzer II (Mus musculus) |
|
| Samples (6)
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| Relations |
| BioProject |
PRJNA148105 |
| SRA |
SRP029297 |
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