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Series GSE45828 Query DataSets for GSE45828
Status Public on Apr 10, 2013
Title Let-7 represses Nr6a1 and a mid-gestation developmental program in adult fibroblasts [CLIP-Seq]
Organism Mus musculus
Experiment type Other
Summary MicroRNAs (miRNAs) are critical to proliferation, differentiation, and development. Here, we characterize gene expression in murine Dicer-null adult mesenchymal stem cell lines, a fibroblast cell type. Loss of Dicer leads to de-repression of let-7 targets at levels that exceed 10-100 fold with increases in transcription. Direct and indirect targets of this miRNA belong to a mid-gestation embryonic program that encompasses known oncofetal genes as well as oncogenes not previously associated with an embryonic state. Surprisingly, this mid-gestation program represents a distinct period that occurs between the pluripotent state of the inner cell mass at embryonic day 3.5 and the induction of let-7, upon differentiation, at embryonic day 10.5. Within this mid-gestation program, we characterize the let-7 target Nr6a1, an embryonic transcriptional repressor that regulates gene expression in adult fibroblasts following miRNA loss. In total, let-7 is required for the continual suppression of embryonic gene expression in adult cells, a mechanism that may underlie its tumor suppressive function.
 
Overall design Adult mesenchymal stem cells (immortalized monoclonal lines of murine MSCs) with Dicer (WT: Dicer f/f), were infected with dox-inducible Flag-HA-hAgo2 or untagged hAgo2 and then UV cross-linked. An immunoprecipitation was carried out with anti-Flag and anti-HA antibodies, and associated RNAs were sequenced.
 
Contributor(s) Gurtan AM, Ravi A, Rahl PB, Bosson AD, JnBaptiste CK, Bhutkar A, Whittaker CA, Young RA, Sharp PA
Citation(s) 23630078
Submission date Apr 05, 2013
Last update date May 15, 2019
Contact name A Bhutkar
Organization name MIT
Street address 77 Massachusetts Avenue
City Cambridge
State/province MA
ZIP/Postal code 02139
Country USA
 
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (2)
GSM1116239 WT_Ago2CLIP_Tagged
GSM1116240 WT_Ago2CLIP_Untagged
This SubSeries is part of SuperSeries:
GSE44163 Let-7 represses Nr6a1 and a mid-gestation developmental program in adult fibroblasts
Relations
BioProject PRJNA196441
SRA SRP020560

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE45828_MSC_top30miRNA_sites_expressed_above_0.1FPKM_CLIPannotated.bed.txt.gz 11.2 Mb (ftp)(http) TXT
GSE45828_RAW.tar 133.8 Mb (http)(custom) TAR (of BW, TXT)
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Raw data are available in SRA
Processed data provided as supplementary file

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