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Series GSE95515 Query DataSets for GSE95515
Status Public on Mar 31, 2017
Title Conserved roles for murine mDUX and human DUX4 in activating cleavage stage genes and MERVL/HERVL retrotransposons [ChIP-Seq Human]
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary To better understand transcriptional regulation during human oogenesis and pre-implantation embryonic development, we defined stage-specific transcription, which revealed cleavage stage as highly distinctive. We present multiple lines of evidence that two cleavage-specific homologs, mouse mDUX and human DUX4, each activate hundreds of cleavage-specific endogenous genes (e.g. ZSCAN4, ZFP352, KDM4E) and retroviral elements (MERVL/HERVL-family). Remarkably, mDux expression converts mouse ESCs into two-cell embryo-like (2C-like) cells by binding to MERVL promoters/enhancers and restoring the chromatin landscape (via ATACseq) to the pattern of mouse two-cell embryos
 
Overall design We ectopically overexpressed human DUX4 (or luciferase control) in human pluripotent stem cells (iPSCs) by dox -induction for 18hrs. Cells were then lysed and chromatin was immunoprecipitated using a rabbit monoclonal anti-DUX4 antibody [E5-5] (ab124699) . 125bp libraries were prepped (2 technical replicates/condition) and sequenced in paired-end format. All sequencing was done on the Illumina HiSeq 2500 platform.
 
Contributor(s) Hendrickson PG, Dorais JA, Grow EJ, Whiddon JL, Lim J, Wike CL, Weaver BD, Pfluegar C, Emery BR, Wilcox AL, Nix D, Peterson M, Tapscott SJ, Carrell D, Cairns BR
Citation(s) 28459457
Submission date Feb 28, 2017
Last update date May 15, 2019
Contact name Peter G Hendrickson
E-mail(s) peter.hendrickson@hci.utah.edu
Organization name University of Utah
Department HHMI/Oncological Sciences
Lab Bradley R. Cairns
Street address 2000 Circle of Hope Dr.
City Salt Lake City
State/province UT
ZIP/Postal code 84112
Country USA
 
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (4)
GSM2515759 Luciferase-D4ChIP-rep1
GSM2515760 Luciferase-D4ChIP-rep2
GSM2515761 DUX4CA-D4ChIP-rep1
This SubSeries is part of SuperSeries:
GSE85632 Conserved roles for murine mDUX and human DUX4 in activating cleavage stage genes and MERVL/HERVL retrotransposons
Relations
BioProject PRJNA377315
SRA SRP100859

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
GSE95515_RAW.tar 1.3 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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