|
| Status |
Public on May 20, 2016 |
| Title |
Acquired tissue-specific promoter bivalency is a basis for PRC2 necessity in adult somatic cells |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
To define H3K27me3 modified genes in intestinal stem, progenitor and epithelial cells, we performed chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-Seq).
We used RNA-sequencing to profile gene expression changes during intestinal stem cell differentiation into mature villus cells, as well as genes perturbed upon loss of PRC2 activity (deletion of Eed) . We find thousands of genes that change in expression including many H3K27me3 marked genes. The deregulated genes reaveal a intestinal tissue specific role of PRC2.
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| |
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| Overall design |
H3K27me3, H3K4me2 and RNA Pol2 ChIP-Seq analysis of isolated mouse intestinal stem cells, enterocyte and secretory progenitor cells, and mature villus cells. RNA seq analysis of control mouse villus cells, control intestinal stem cells and Eed-deleted villus.
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| |
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| Contributor(s) |
Jadhav U, Nalapareddy K, Saxena M, O’Neill NK, Piniello L, Yuan G, Orkin SH, Shivdasani RA |
| Citation(s) |
27212235 |
| |
| Submission date |
Aug 04, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Ramesh Shivdasani |
| E-mail(s) |
[email protected]
|
| Organization name |
Dana Farber Cancer Institute
|
| Department |
Medical Oncology
|
| Lab |
Shivdasani
|
| Street address |
450 Brookline Ave. Dana 720D
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02215 |
| Country |
USA |
| |
|
| Platforms (2) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
|
| Samples (23)
|
| GSM1843521 |
Wild-type Villus RNA-seq biological rep 1 |
| GSM1843522 |
Wild-type Villus RNA-seq biological rep 2 |
| GSM1843523 |
Wild-type Villus RNA-seq biological rep 3 |
|
| Relations |
| BioProject |
PRJNA291874 |
| SRA |
SRP062014 |
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