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| Status |
Public on May 07, 2016 |
| Title |
Cross-species comparison of epigenetic poising in the mammalian germ line |
| Organisms |
Gallus gallus; Macaca mulatta; Homo sapiens; Bos taurus; Mus musculus; Monodelphis domestica |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
In the mouse, germ cells and embryonic stem cells maintain an epigenetically poised (bivalent) state, defined by the simultaneous presence of the opposing histone modifications H3K4me3 and H3K27me3 and by transcriptional repression, at the promoters of many developmental regulatory genes. We compared genome-wide chromatin state in male germ cells of five mammalian and one avian species. We identified a set of 405 genes whose promoters retain poised chromatin in the mammalian germ line throughout mammalian evolution.
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| |
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| Overall design |
ChIP-seq of H3K4me3 and H3K27me3, along with RNA-seq, in sorted meiotic and post-meiotic male germ cells of human (3 biological replicates), rhesus (2 biological replicates), mouse (1 replicate), bull (1 replicate), opossum (2 replicates), and chicken (1 replicate). Raw data is in SRA under accession numbers SRP057141, SRP028905, and SRP028906 (BioProjects PRJNA281061, PRJNA214839 and PRJNA214840).
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| |
|
| Contributor(s) |
Lesch BJ, Page DC |
| Citation(s) |
27294618, 38274996 |
| BioProject |
PRJNA281061 |
| |
| Submission date |
May 04, 2015 |
| Last update date |
Feb 09, 2024 |
| Contact name |
Bluma J Lesch |
| Organization name |
Yale University
|
| Department |
Genetics
|
| Street address |
333 Cedar Street
|
| City |
New Haven |
| State/province |
CT |
| ZIP/Postal code |
06525 |
| Country |
USA |
| |
|
| Platforms (7)
|
| GPL9250 |
Illumina Genome Analyzer II (Mus musculus) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
| GPL19005 |
Illumina HiSeq 2500 (Gallus gallus) |
| GPL19129 |
Illumina HiSeq 2500 (Macaca mulatta) |
| GPL19172 |
Illumina HiSeq 2500 (Bos taurus) |
| GPL20141 |
Illumina HiSeq 2500 (Monodelphis domestica) |
|
| Samples (87)
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|
| Relations |
| SRA |
SRP057141 |
| SRA |
SRP028905 |
| SRA |
SRP028906 |
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