Genomics

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Transcriptional landscape of Rag2 -/- thymocytes [Mnase-Seq]


ABSTRACT: We performed ChIP-Seq for hallmark TFs (Ets1, Runx1), histone modification marks (H3K4me1, H3K4me2, H3K4me3, H3K27me3, H3K36me3), total RNA Pol II, short RNA-Seq as well as nucleosome mapping mainly in murine Rag2 -/- thymocytes. We also performed ChIP-Seq for E47 as well as nucleosome mapping, gene expression microarray analysis in CD4+ CD8+ DP thymocytes. Overall, we find a key role for the transcription factor Ets1, contributing towards alpha beta T cell lineage commitment via differential transactivation of stage-specific genes orchestrated by dynamic, co-association -mediated chromatin remodeling, as well as transcription dependent generation of a specialized chromatin structure at the TCR beta locus. Genome-wide analysis via ChIP-Seq for Ets1, Runx1, total RNA Pol II binding, H3K4me1, H3K4me2, H3K4me3, H3K27me3, H3K36me3, short RNA-Seq, Mnase-Seq in murine Rag2 -/- thymocytes, ChIP-Seq for E47, Mnase-Seq and gene expression microarray analysis in DP thymocytes This Series represents Mnase-Seq data.

ORGANISM(S): Mus musculus  

SUBMITTER: Salvatore Spicuglia   Angelica Santana  Ahmad Maqbool  Jean-Christophe Andrau  Joaquin Zacarias-Cabeza  Pierre Daniel Cauchy  Hélène Holota  Jean Imbert  Aleksandra Pekowska  Romain Fenouil  Pierre Ferrier  Laurent Vanhille  Frederic Koch  Pierre Cauchy  Aurélien Griffon 

PROVIDER: E-GEOD-56360 | ArrayExpress | 2014-04-01

SECONDARY ACCESSION(S): SRP040730GSE56360PRJNA243033

REPOSITORIES: GEO, ArrayExpress, ENA

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