Genomics

Dataset Information

273

Genome-wide maps of chromatin state and chromatin accessibility in CD8 T cell subsets


ABSTRACT: To understand epigenetic mechanisms underlying CD8 T cell differentiation, we performed ChIP-seq of 4 histone modifications (H3K4me1, H3K4me3, H3K27ac, H3K27me3) and ATAC-seq to probe chromatin states and accessibility. We identified subset-specific regulatory elements (enhancers and promoters) from chromatin states and predicted key transcription factors from accessible regulatory regions using ATAC-seq. Overall design: Examination of 4 different histone modifications and open chromatin in 4 cell types.

REANALYSED by: GSE111902

INSTRUMENT(S): Illumina HiSeq 2500 (Mus musculus)

SUBMITTER: Bingfei Yu  

PROVIDER: GSE95237 | GEO | 2017-03-13

SECONDARY ACCESSION(S): PRJNA376705

REPOSITORIES: GEO

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Publications

Epigenetic landscapes reveal transcription factors that regulate CD8+ T cell differentiation.

Yu Bingfei B   Zhang Kai K   Milner J Justin JJ   Toma Clara C   Chen Runqiang R   Scott-Browne James P JP   Pereira Renata M RM   Crotty Shane S   Chang John T JT   Pipkin Matthew E ME   Wang Wei W   Goldrath Ananda W AW  

Nature immunology 20170313 5


Dynamic changes in the expression of transcription factors (TFs) can influence the specification of distinct CD8+ T cell fates, but the observation of equivalent expression of TFs among differentially fated precursor cells suggests additional underlying mechanisms. Here we profiled the genome-wide histone modifications, open chromatin and gene expression of naive, terminal-effector, memory-precursor and memory CD8+ T cell populations induced during the in vivo response to bacterial infection. In  ...[more]

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