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Circularized chromosome conformation capture (4C-seq) in A549 and U2OS cells stably expressing rat GR

ABSTRACT: To investigate the interaction landscape at the GILZ locus we performed 4C-seq in A549 (ATCC CCL-185) and U2OS cells stably expressing rat GR (Rogatsky et al. , Mol Cell Biol, 1997. 17(6): p. 3181-93.) upon hormone treatment (1.5 h, 1 M dexamethasone). Experiments were performed in two biological replicates using hg19 chrX:106,960,488-106,960,865 as a viewpoint.

INSTRUMENT(S): NextSeq 500

ORGANISM(S): Homo sapiens

SUBMITTER: Robert Schöpflin

PROVIDER: E-MTAB-5350 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Genomic dissection of enhancers uncovers principles of combinatorial regulation and cell type-specific wiring of enhancer-promoter contacts.

Thormann Verena V Rothkegel Maika C MC Schöpflin Robert R Glaser Laura V LV Djuric Petar P Li Na N Chung Ho-Ryun HR Schwahn Kevin K Vingron Martin M Meijsing Sebastiaan H SH

Nucleic acids research 20180401 6

Genomic binding of transcription factors, like the glucocorticoid receptor (GR), is linked to the regulation of genes. However, as we show here, GR binding is a poor predictor of GR-dependent gene regulation even when taking the 3D organization of the genome into account. To connect GR binding sites to the regulation of genes in the endogenous genomic context, we turned to genome editing. By deleting GR binding sites, individually or in combination, we uncovered how cooperative interactions betw ...[more]

PMID: 29385519

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