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Series GSE50561 Query DataSets for GSE50561
Status Public on May 29, 2014
Title Trophoblast giant cell underrepresentation (sequencing)
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary We characterized the mouse trophoblast giant cell epigenome and gene expression profiles. We then compared these data to our data on underrepresentation in the polyploid trophoblast giant cells.
Overall design We profiled 5 histone modifications (+ chromatin input) using ChIP-Seq, and digital expression profiles (3' RNA-Seq) for trophoblast giant cells derived from mouse. Furthermore, we profiled digital expression profiles (3' RNA-Seq) for in vivo trophoblast giant cells samples from e9.5 wildtype mouse trophoblast giant cells. We found that underrepresented domains in trophoblast giant cells are enriched for repressive marks and anti-correlate with active marks and transcription.
Contributor(s) Chuong EB, Hannibal RL, Baker JC
Citation(s) 24785991
Submission date Sep 03, 2013
Last update date May 15, 2019
Contact name Roberta L Hannibal
Organization name Stanford University
Department Genetics
Street address 300 Pasteur Drive
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
Platforms (2)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (18)
GSM1223551 mouse_tgc_h3k27ac (paired-end)
GSM1223552 mouse_tgc_h3k27ac
GSM1223553 mouse_tgc_h3k4me3 (paired-end)
This SubSeries is part of SuperSeries:
GSE50585 Trophoblast giant cell underrepresentation
BioProject PRJNA218198
SRA SRP029516

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

Supplementary file Size Download File type/resource
GSE50561_regions.ensembl.norm.genes.txt.gz 1.1 Mb (ftp)(http) TXT
GSE50561_tgc_h3k27ac_peaks.bed.gz 1.4 Mb (ftp)(http) BED
GSE50561_tgc_h3k27me3_peaks.bed.gz 375.9 Kb (ftp)(http) BED
GSE50561_tgc_h3k4me1_peaks.bed.gz 1.7 Mb (ftp)(http) BED
GSE50561_tgc_h3k4me3_peaks.bed.gz 529.7 Kb (ftp)(http) BED
GSE50561_tgc_h3k9me3_peaks.bed.gz 955.5 Kb (ftp)(http) BED
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