Genome-wide analysis of estrogen receptor binding sites.
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.
Carroll
Jason S
JS
Department of Medical Oncology, Dana-Farber Cancer Institute, Harvard Medical School, 44 Binney St., Boston, Massachusetts 02115, USA.
Meyer
Clifford A
CA
Song
Jun
J
Li
Wei
W
Geistlinger
Timothy R
TR
Eeckhoute
Jérôme
J
Brodsky
Alexander S
AS
Keeton
Erika Krasnickas
EK
Fertuck
Kirsten C
KC
Hall
Giles F
GF
Wang
Qianben
Q
Bekiranov
Stefan
S
Sementchenko
Victor
V
Fox
Edward A
EA
Silver
Pamela A
PA
Gingeras
Thomas R
TR
Liu
X Shirley
XS
Brown
Myles
M
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
D048868:Adaptor Proteins, Signal Transducing; D004268:DNA-Binding Proteins; D009687:Nuclear Proteins; D000078723:Nuclear Receptor Interacting Protein 1; D011960:Receptors, Estrogen; D014157:Transcription Factors