Rais2013 Data: Deterministic direct reprogramming of somatic cells to pluripotency

By (Secondary Ownership. The experiment uses only third-party data.)

Description from GEO:

Summary Somatic cells can be directly reprogrammed to pluripotency by exogenous expression of transcription factors, classically Oct4, Sox2, Klf4 and c-Myc. While distinct types of somatic cells can be reprogramed with varying efficiencies and by different modified reprogramming protocols, induced pluripotent stem cell (iPSC) induction remains inefficient and stochastic where a fraction of the cells converts into iPSCs. The nature of rate limiting barrier(s) preventing majority of cells to convert into iPSCs remains elusive. Here we show that neutralizing Mbd3, a core member of the Mbd3/NURD co-repressor and chromatin-remodeling complex, results in deterministic and synchronized reprogramming of multiple differentiated cell types to pluripotency. 100% of Mbd3 depleted mouse and human somatic cells convert into iPSCs after seven days of reprogramming factor induction. Our findings delineate a critical pathway blocking the reestablishment of pluripotency, and offer a novel platform for future dissection of epigenetic dynamics leading to iPSC formation at high resolution.

Overall design Samples include Mbd3+/+, Mbd3flox/- and Mbd3-/- cells from mouse ES cells and mouse embryonic fibroblast (MEF) before and after DOX induction (initiating reprogramming by OSKM factors). Two histone modifications are given: H3K4me3, H3K27me3. In addition binding data of Mbd3 and Mi2B in various stages.
iPS RNA-seq treatment comparison stem cells time-course gene expression / transcription transcription factors reprogramming
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Illumina HiSeq 2000

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Input Data

Sample Groups and Experimental Factors

Genome Snapshots

'Genome snapshots' are assorted genomic regions that the creators of this experiment considered of particular interest.

Sall4 during Reprogramming

Nanog during Reprogramming

Mbd3 during Reprogramming

Sox2 during Reprogramming

Utf1 during Reprogramming

Oct4 during Reprogramming

Main Experimental Results

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Other data generated in this experiment:

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Analysis Workflow

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