Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0

Genome-wide maps of H3K4me2/3 in prostate cancer cell line LNCaP

ABSTRACT: We report the high-throughput profiling of histone modifications in prostate cancer cells. By obtaining over 1 billion bases of sequence from chromatin immunoprecipitated DNA, we generated genome-wide chromatin-state maps of prostate cancer cells. we found androgen treatment dismisses a nucleosome over AR binding sites that are flanked by a pair of H3K4me2 marked nucleosomes. A novel quantitative model built on the behavior of such nucleosome pairs correctly identified regions bound by the regulators of the immediate androgen response including AR and FoxA1. More importantly this model also correctly predicted novel binding sites for other transcription factors present following prolonged androgen stimulation including Oct1 and NKX3.1. Thus quantitative modeling of enhancer structure provides a powerful predictive method to infer the identity of transcription factors involved in cellular responses to specific stimuli. Examination of 2 different histone modifications in prostate cancer cells with and without androgen (dihydrotestosterone, DHT) treatment.

ORGANISM(S): Homo sapiens

SUBMITTER: Housheng He 

PROVIDER: E-GEOD-20042 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

Json Xml
altmetric image

Publications

Chromatin plays a central role in eukaryotic gene regulation. We performed genome-wide mapping of epigenetically marked nucleosomes to determine their position both near transcription start sites and at distal regulatory elements, including enhancers. In prostate cancer cells, where androgen receptor binds primarily to enhancers, we found that androgen treatment dismisses a central nucleosome present at androgen receptor binding sites that is flanked by a pair of marked nucleosomes. A new quanti  ...[more]

Similar Datasets

Genomics Genome-wide maps of H3K4me2/3 in prostate cancer cell line LNCaP
2010-03-09 | GSE20042 | GEO
Transcriptomics Effects of Oct1 inhibition in AR signaling
2016-04-01 | E-GEOD-77650 | biostudies-arrayexpress
Transcriptomics Effects of Oct1 inhibition in AR signaling
2016-04-01 | GSE77650 | GEO
Genomics Genome-wide maps of chromatin state in patient-derived model (PDX) of AR-positive or negative CRPC
2022-04-20 | GSE193073 | GEO
Genomics Regulation of androgen receptor signaling by Oct1 recruitment in prostate cancer
2016-04-01 | E-GEOD-77770 | biostudies-arrayexpress
Genomics Genome-wide maps of H3K4me2 and DNase I hypersensitivity sites in prostate cancer cell line LNCaP and breast cancer cell line MCF-7.
2012-03-25 | E-GEOD-33216 | biostudies-arrayexpress
Transcriptomics Effects of OCT1 knockdown in castration-resistant prostate cancer cells
2019-03-01 | GSE123517 | GEO
Proteomics Single-minded homolog 2 resides in the chromatin protein network of androgen receptor and modulates gene expression in prostate cancer cells Single-minded homolog 2 resides in the chromatin protein network of androgen receptor and modulates gene expression in prostate cancer cells
2021-06-17 | PXD025193 | Pride
Metabolomics Spermine is a natural suppressor of AR signaling in castration-resistant prostate cancer
2023-10-11 | MTBLS8034 | MetaboLights
Genomics Regulation of androgen receptor signaling by Oct1 recruitment in prostate cancer
2016-04-01 | GSE77770 | GEO