title: Genome-wide analysis of estrogen receptor binding sites.
abstract: The estrogen receptor is the master transcriptional regulator of breast cancer phenotype and the archetype of a molecular therapeutic target. We mapped all estrogen receptor and RNA polymerase II binding sites on a genome-wide scale, identifying the authentic cis binding sites and target genes, in breast cancer cells. Combining this unique resource with gene expression data demonstrates distinct temporal mechanisms of estrogen-mediated gene regulation, particularly in the case of estrogen-suppressed genes. Furthermore, this resource has allowed the identification of cis-regulatory sites in previously unexplored regions of the genome and the cooperating transcription factors underlying estrogen signaling in breast cancer.
authors.affiliation: Department of Medical Oncology, Dana-Farber Cancer Institute, Harvard Medical School, 44 Binney St., Boston, Massachusetts 02115, USA.
authors.forename: Jason S
authors.initials: JS
authors.lastname: Carroll
authors.forename: Clifford A
authors.initials: CA
authors.lastname: Meyer
authors.forename: Jun
authors.initials: J
authors.lastname: Song
authors.forename: Wei
authors.initials: W
authors.lastname: Li
authors.forename: Timothy R
authors.initials: TR
authors.lastname: Geistlinger
authors.forename: Jérôme
authors.initials: J
authors.lastname: Eeckhoute
authors.forename: Alexander S
authors.initials: AS
authors.lastname: Brodsky
authors.forename: Erika Krasnickas
authors.initials: EK
authors.lastname: Keeton
authors.forename: Kirsten C
authors.initials: KC
authors.lastname: Fertuck
authors.forename: Giles F
authors.initials: GF
authors.lastname: Hall
authors.forename: Qianben
authors.initials: Q
authors.lastname: Wang
authors.forename: Stefan
authors.initials: S
authors.lastname: Bekiranov
authors.forename: Victor
authors.initials: V
authors.lastname: Sementchenko
authors.forename: Edward A
authors.initials: EA
authors.lastname: Fox
authors.forename: Pamela A
authors.initials: PA
authors.lastname: Silver
authors.forename: Thomas R
authors.initials: TR
authors.lastname: Gingeras
authors.forename: X Shirley
authors.initials: XS
authors.lastname: Liu
authors.forename: Myles
authors.initials: M
authors.lastname: Brown
mesh_terms: D048868:Adaptor Proteins, Signal Transducing / Q000378:metabolism; D000230:Adenocarcinoma / Q000235:genetics; D001943:Breast Neoplasms / Q000235:genetics; D002478:Cells, Cultured; D002874:Chromosome Mapping / Q000379:methods; D017124:Conserved Sequence; D004268:DNA-Binding Proteins / Q000378:metabolism; D015536:Down-Regulation; D015870:Gene Expression; D005786:Gene Expression Regulation; D015894:Genome, Human; D006801:Humans; D046228:Microarray Analysis / Q000379:methods; D009687:Nuclear Proteins / Q000378:metabolism; D000078723:Nuclear Receptor Interacting Protein 1; D011960:Receptors, Estrogen / Q000378:metabolism*; D020218:Response Elements / Q000502:physiology; D014157:Transcription Factors / Q000502:physiology; D024363:Transcription Initiation Site
chemical_list: D048868:Adaptor Proteins, Signal Transducing; D004268:DNA-Binding Proteins; D009687:Nuclear Proteins; D000078723:Nuclear Receptor Interacting Protein 1; D011960:Receptors, Estrogen; D014157:Transcription Factors