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Series GSE104399 Query DataSets for GSE104399
Status Public on Feb 02, 2018
Title Characterizing steroid hormone receptor chromatin binding landscapes in male and female breast cancer
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Male breast cancer (MBC) is rare and poorly characterized. Like the female counterpart, most MBCs are hormonally driven, but resistance to hormonal treatment is common. The pan-hormonal action of steroid hormonal receptors including Estrogen Receptor alpha (ERα), Androgen Receptor (AR), Progesterone Receptor (PR) and Glucocorticoid Receptor (GR) in this understudied tumor type remains wholly unexamined. This pioneering study reveals genomic cross-talk of steroid hormone receptor action and interplay in human tumors, here in the context of MBC, in relation to patient outcome. Using chromatin immunoprecipitation coupled with massively-parallel sequencing (ChIP-seq), we characterized human MBCs for epigenetic make-up of hormonal regulation in human tumors, revealing genome-wide chromatin binding landscapes of ERα, AR, PR and GR, along with pioneer factor FOXA1 and enhancer-enriched histone mark H3K4me1. These data were integrated with transcriptomics analyses to reveal gender-selective and genomic location-specific hormone receptor action, that are associated with survival in MBC patients.
 
Overall design Binding of steroid hormone receptors (ER, AR, PR, GR) together with pioneer factors (FOXA1, GATA3) and a histone mark (H3K4me1) profiled in subsets of 30 males and 8 females breast tumors, and MCF-7 by ChIP-seq (Chromatin Immunoprecipitation followed by deep sequencing).
 
Contributor(s) Schuurman K, Joosten S, Kim Y, Severson TM, van der Groep P, van Diest P, Zwart W
Citation(s) 29396493
Submission date Sep 28, 2017
Last update date May 15, 2019
Contact name Wilbert Zwart
E-mail(s) w.zwart@nki.nl
Organization name The Netherlands Cancer Institute
Street address Plesmanlaan 121
City Amsterdam
ZIP/Postal code 1066 CX
Country Netherlands
 
Platforms (1)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Samples (86)
GSM2797074 ER ChIP-seq Female_1
GSM2797075 ER ChIP-seq Female_2
GSM2797076 ER ChIP-seq Female_3
Relations
BioProject PRJNA412535
SRA SRP119087

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Supplementary file Size Download File type/resource
GSE104399_RAW.tar 11.4 Mb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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