Transcriptomics

Dataset Information

294

TRIM28 is an epigenetic barrier to induced pluripotent stem cell reprogramming


ABSTRACT: Since the discovery of induced pluripotent stem cells there has been intense interest in understanding the mechanisms that allow a somatic cell to be reprogrammed back to a pluripotent state. Several groups have studied the alterations in gene expression that occur as somatic cells modify their genome to that of an embryonic stem cell. Underpinning many of the gene expression changes are modifications to the epigenetic profile of the associated chromatin. We have used a large-scale shRNA screen to identify epigenetic modifiers that act as barriers to reprogramming. We have uncovered an important role for TRIM28 in cells resisting transition between somatic and pluripotent states. TRIM28 achieves this by maintaining the H3K9me3 repressed state and keeping endogenous retroviruses silenced. We propose that knockdown of TRIM28 during reprogramming results in more plastic H3K9me3 domains, dysregulation of genes nearby H3K9me3 marks, and up regulation of endogenous retroviruses, thus facilitating the transition through reprogramming. Gene expression profiling using high through put sequencing at day 7 of Oct4, Sox2, Klf4 and cMyc (OSKM) expression in mouse embryonic fibroblasts with or without Trim28 / Setdb1 knockdown

ORGANISM(S): Mus musculus  

SUBMITTER: Martijn Koppens   Maarten van Lohuizen  Denise C Miles  Santiago Gisler  Ellen Tanger  Danielle Hulsman  Waseem Akhtar  Nienke A de Vries  Cor Lieftink  Inka Pawlitzky  Denise Miles  Roderick L Beijersbergen  Ewa Gogola 

PROVIDER: E-GEOD-80550 | ArrayExpress | 2016-06-28

SECONDARY ACCESSION(S): SRP073679GSE80550PRJNA319261

REPOSITORIES: GEO, ArrayExpress, ENA

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