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Series GSE71713 Query DataSets for GSE71713
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.
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.
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
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
BioProject PRJNA291874
SRA SRP062014

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Supplementary file Size Download File type/resource
GSE71713_Differential_Expression_Villus-vs-ISC.txt.gz 659.3 Kb (ftp)(http) TXT
GSE71713_Differential_Expression_WT-Villus-vs-Eed-del-Villus.txt.gz 668.2 Kb (ftp)(http) TXT
GSE71713_RAW.tar 5.6 Gb (http)(custom) TAR (of BIGWIG, BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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