Genomics,Multiomics

Dataset Information

81

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: Sebastiaan H Meijsing  Morgane Thomas-Chollier    

PROVIDER: E-MTAB-2955 | ArrayExpress | 2015-03-06

SECONDARY ACCESSION(S): ERP006257E-MTAB-2731ERP007093

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

2014-09-28 | E-MTAB-2731 | ArrayExpress
2016-11-10 | E-MTAB-5113 | ArrayExpress
2014-05-03 | E-GEOD-37641 | ArrayExpress
2014-05-03 | E-GEOD-36589 | ArrayExpress
2014-05-02 | E-GEOD-21939 | ArrayExpress
2014-05-02 | E-GEOD-40762 | ArrayExpress
2014-07-24 | E-GEOD-43876 | ArrayExpress
2013-04-03 | E-GEOD-30623 | ArrayExpress
2015-05-07 | E-GEOD-67298 | ArrayExpress
2014-06-02 | E-GEOD-32075 | ArrayExpress