Systemic identification of estrogen-regulated genes in breast cancer cells through cap analysis of gene expression mapping

Biochem Biophys Res Commun. 2014 May 9;447(3):531-6. doi: 10.1016/j.bbrc.2014.04.033. Epub 2014 Apr 16.


To explore the estrogen-regulated genes genome-widely in breast cancer, cap analysis of gene expression (CAGE) sequencing was performed in MCF-7 cells under estrogen treatment. Estrogen-regulated expressional changes were found in 1537 CAGE tag clusters (TCs) (⩾1.5 or ⩽0.66-folds). Among them, 15 TCs were situated in the vicinity of (⩽10 kb) reported estrogen receptor-binding sites. Knockdown experiments of the 15 TC-associated genes demonstrated that the genes such as RAMP3, ISOC1 and GPRC5C potentially regulate the growth or migration of MCF-7 cells. These results suggest that CAGE sequencing will reveal novel estrogen target genes in breast cancer.

Keywords: Breast cancer; Cap analysis of gene expression; Estrogen; Transcriptome.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Breast Neoplasms / genetics*
  • Breast Neoplasms / metabolism
  • Cell Line, Tumor
  • Chromosome Mapping
  • Estrogen Receptor alpha / metabolism
  • Estrogens / metabolism*
  • Estrogens / pharmacology
  • Female
  • Gene Expression Profiling / methods
  • Gene Expression Regulation, Neoplastic*
  • Gene Knockdown Techniques / methods
  • Genetic Testing
  • Humans
  • MCF-7 Cells


  • Estrogen Receptor alpha
  • Estrogens