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Series GSE42207 Query DataSets for GSE42207
Status Public on Dec 04, 2012
Title Rodent trophoblast epigenome
Organisms Mus musculus; Rattus norvegicus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary We characterized the trophoblast stem cell epigenome and gene expression profiles in rat and mouse.
Overall design We profiled 5 histone modifications (+ chromatin input) using ChIP-Seq, and digital expression profiles (3' RNA-Seq) for trophoblast stem cells derived from rat and mouse. Furthermore, for mouse, we profiled key trophoblast stem cell factors Elf5, Cdx2, and Eomes. We found that enhancer regions (defined as distal regions of H3K27ac/H3K4me1 enrichment) were enriched for species-specific endogenous retroviral elements.
Contributor(s) Chuong EB, Baker JC
Citation(s) 23396136
Submission date Nov 09, 2012
Last update date May 15, 2019
Contact name Edward Chuong
Organization name University of Colorado Boulder
Department BioFrontiers
Lab Chuong
Street address 596 UCB
City Boulder
ZIP/Postal code 80304
Country USA
Platforms (4)
GPL10669 Illumina Genome Analyzer IIx (Rattus norvegicus)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (26)
GSM1035380 mouse_ts_h3k27ac
GSM1035381 mouse_ts_h3k27ac (paired-end)
GSM1035382 mouse_ts_h3k4me3
BioProject PRJNA179294
SRA SRP017140

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE42207_RAW.tar 5.9 Mb (http)(custom) TAR (of BED, TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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