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Series GSE103980 Query DataSets for GSE103980
Status Public on Jun 18, 2019
Title Pluripotency reprogramming by competent and incompetent POU factors uncovers temporal dependency for Oct4 and Sox2
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary Oct4, along with Sox2 and Klf4 (SK), can induce pluripotency but structurally similar factors like Oct6 cannot. To decode why Oct4 has this unique ability, we compare Oct4-binding, accessibility patterns and transcriptional waves with Oct6 and an Oct4 mutant defective in the dimerization with Sox2 (Oct4defSox2). We find that initial silencing of the somatic program proceeds indistinguishably with or without Oct4. Oct6 mitigates the mesenchymal-to-epithelial transition and derails reprogramming. These effects are a consequence of differences in genome-wide binding, as the early binding profile of Oct4defSox2 resembles Oct4, whilst Oct6 does not bind pluripotency enhancers. Nevertheless, in the Oct6-SK condition many otherwise Oct4-bound locations become accessible but chromatin opening is compromised when Oct4defSox2 occupies these sites. We find that Sox2 predominantly facilitates chromatin opening, whilst Oct4 serves an accessory role. Formation of Oct4/Sox2 heterodimers is essential for pluripotency establishment; however, reliance on Oct4/Sox2 heterodimers declines during pluripotency maintenance.
 
Overall design GSE103978[CHIP-Seq]
GSE103979[RNA-Seq]
GSE119396[ATAC-Seq]
 
Citation(s) 31375664
Submission date Sep 18, 2017
Last update date Jul 25, 2021
Contact name Veeramohan Veerapandian
E-mail(s) [email protected]
Organization name Max Planck Institute for Molecular Biomedicine
Department Department Tissue Morphogenesis
Street address Röntgenstr. 20
City Munster
State/province North Rhine-Westphalia
ZIP/Postal code 48149
Country Germany
 
Platforms (2)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL21273 HiSeq X Ten (Mus musculus)
Samples (71)
GSM2787242 oct4WT_O4SK_d1
GSM2787244 oct4WT_O4SK_d5
GSM2787245 oct4WT_O4SK_d7
This SuperSeries is composed of the following SubSeries:
GSE103978 Pluripotency reprogramming by competent and incompetent POU factors uncovers temporal dependency for Oct4 and Sox2 [CHIP-Seq]
GSE103979 Pluripotency reprogramming by competent and incompetent POU factors uncovers temporal dependency for Oct4 and Sox2 [RNA-Seq]
GSE119396 Pluripotency reprogramming by competent and incompetent POU factors uncovers temporal dependency for Oct4 and Sox2 [ATAC-Seq]
Relations
BioProject PRJNA407838

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
GSE103980_RAW.tar 8.0 Gb (http)(custom) TAR (of BED, BW, NARROWPEAK)
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