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| Status |
Public on Mar 31, 2017 |
| Title |
Conserved roles for murine mDUX and human DUX4 in activating cleavage stage genes and MERVL/HERVL retrotransposons [ATAC-Seq] |
| Organism |
Mus musculus |
| Experiment type |
Other
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| 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
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| Overall design |
We ectopically overexpressed mouse DUX (mDux) in mESCs by treating stable, clonal, cells (TRE::3xHA-mDux; MERVL::EGFP) with doxycycline for 24hrs. Cells were then subjected to FACS to separate GFP-positive and GFP-negative populations (~30,000 cells/replicate; 2 replicates per condition) for ATAC-sequencing. 125bp libraries were prepped and sequenced in paired-end format. All sequencing was done on the Illumina HiSeq 2500 platform.
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| Contributor(s) |
Hendrickson PG, Dorais JA, Whiddon JL, Grow EJ, Wike CL, Lim J, Pfluegar C, Nix D, Emery BR, Murphy K, Peterson M, Tapscott SJ, Carrell D, Cairns BR |
| Citation(s) |
28459457 |
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| Submission date |
Aug 15, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Peter G Hendrickson |
| E-mail(s) |
peter.hendrickson@hci.utah.edu
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| Organization name |
University of Utah
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| Department |
HHMI/Oncological Sciences
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| Lab |
Bradley R. Cairns
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| Street address |
2000 Circle of Hope Dr.
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| City |
Salt Lake City |
| State/province |
UT |
| ZIP/Postal code |
84112 |
| Country |
USA |
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| Platforms (1) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
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| Samples (4)
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| This SubSeries is part of SuperSeries: |
| GSE85632 |
Conserved roles for murine mDUX and human DUX4 in activating cleavage stage genes and MERVL/HERVL retrotransposons |
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| Relations |
| BioProject |
PRJNA338975 |
| SRA |
SRP082164 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE85624_mDUX-GFPneg_ATAC.bw |
171.3 Mb |
(ftp)(http) |
BW |
| GSE85624_mDUX-GFPpos_ATAC.bw |
169.7 Mb |
(ftp)(http) |
BW |
SRA Run Selector |
| Processed data are available on Series record |
| Raw data are available in SRA |
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