Genome-wide analysis of estrogen receptor binding sites

Nat Genet. 2006 Nov;38(11):1289-97. doi: 10.1038/ng1901. Epub 2006 Oct 1.


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.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Adaptor Proteins, Signal Transducing / metabolism
  • Adenocarcinoma / genetics
  • Breast Neoplasms / genetics
  • Cells, Cultured
  • Chromosome Mapping / methods
  • Conserved Sequence
  • DNA-Binding Proteins / metabolism
  • Down-Regulation
  • Gene Expression
  • Gene Expression Regulation
  • Genome, Human*
  • Humans
  • Microarray Analysis / methods
  • Nuclear Proteins / metabolism
  • Nuclear Receptor Interacting Protein 1
  • Receptors, Estrogen / metabolism*
  • Response Elements* / physiology
  • Transcription Factors / physiology
  • Transcription Initiation Site


  • Adaptor Proteins, Signal Transducing
  • DNA-Binding Proteins
  • Nuclear Proteins
  • Nuclear Receptor Interacting Protein 1
  • Receptors, Estrogen
  • Transcription Factors