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Glucocorticoid receptor profiling in IMR90,K562 and U2OS (ChIP-seq)

ABSTRACT: To identify the sequences responsible for recruitment of Glucocorticoid receptor (GR) to individual loci, we performed ChIP-seq and ChIP-exo that combines chromatin immunoprecipitation with an exonuclease digestion step. We performed these experiments in three cell lines : IMR90 (ATTC:CCL-186), U2OS osteosarcoma cell lines, K562 (ATCC:CCL243), upon glucocorticoid treatment. The U2OS assays are the same as those in E-MTAB-2731.

INSTRUMENT(S): Illumina Genome Analyzer II

ORGANISM(S): Homo sapiens

SUBMITTER: Morgane Thomas-Chollier

PROVIDER: E-MTAB-2955 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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ChIP-exo signal associated with DNA-binding motifs provides insight into the genomic binding of the glucocorticoid receptor and cooperating transcription factors.

Starick Stephan R SR Ibn-Salem Jonas J Jurk Marcel M Hernandez Céline C Love Michael I MI Chung Ho-Ryun HR Vingron Martin M Thomas-Chollier Morgane M Meijsing Sebastiaan H SH

Genome research 20150226 6

The classical DNA recognition sequence of the glucocorticoid receptor (GR) appears to be present at only a fraction of bound genomic regions. To identify sequences responsible for recruitment of this transcription factor (TF) to individual loci, we turned to the high-resolution ChIP-exo approach. We exploited this signal by determining footprint profiles of TF binding at single-base-pair resolution using ExoProfiler, a computational pipeline based on DNA binding motifs. When applied to our GR an ...[more]

PMID: 25720775

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