Genomics,Multiomics

Dataset Information

62

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


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.

INSTRUMENT(S): Illumina HiSeq 2000

ORGANISM(S): Homo sapiens  

SUBMITTER: Sebastiaan H Meijsing  Morgane Thomas-Chollier    

PROVIDER: E-MTAB-2956 | ArrayExpress | 2015-02-25

SECONDARY ACCESSION(S): ERP007081

REPOSITORIES: ArrayExpress, ENA

altmetric image

Publications

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]

Similar Datasets

2016-11-10 | E-MTAB-5113 | ArrayExpress
2015-03-06 | E-MTAB-2955 | ArrayExpress
2019-03-11 | E-MTAB-7747 | ArrayExpress
2015-02-25 | E-MTAB-2954 | ArrayExpress
2018-10-29 | E-MTAB-6738 | ArrayExpress
2018-10-29 | E-MTAB-6737 | ArrayExpress
2019-03-11 | E-MTAB-7745 | ArrayExpress
2019-03-11 | E-MTAB-7746 | ArrayExpress
2014-04-15 | E-GEOD-54963 | ArrayExpress
2014-12-10 | E-GEOD-52614 | ArrayExpress