Sensitive ChIP-DSL technology reveals an extensive estrogen receptor alpha-binding program on human gene promoters.

Abstract:

:ChIP coupled with microarray provides a powerful tool to determine in vivo binding profiling of transcription factors to deduce regulatory circuitries in mammalian cells. Aiming at improving the specificity and sensitivity of such analysis, we developed a new technology called ChIP-DSL using the DNA selection and ligation (DSL) strategy, permitting robust analysis with much reduced materials compared with standard procedures. We profiled general and sequence-specific DNA binding transcription factors using a full human genome promoter array based on the ChIP-DSL technology, revealing an unprecedented number of the estrogen receptor (ERalpha) target genes in MCF-7 cells. Coupled with gene expression profiling, we found that only a fraction of these direct ERalpha target genes were highly responsive to estrogen and that the expression of those ERalpha-bound, estrogen-inducible genes was associated with breast cancer progression in humans. This study demonstrates the power of the ChIP-DSL technology in revealing regulatory gene expression programs that have been previously invisible in the human genome.

authors

Kwon YS,Garcia-Bassets I,Hutt KR,Cheng CS,Jin M,Liu D,Benner C,Wang D,Ye Z,Bibikova M,Fan JB,Duan L,Glass CK,Rosenfeld MG,Fu XD

doi

10.1073/pnas.0700715104

subject

Has Abstract

pub_date

2007-03-20 00:00:00

pages

4852-7

issue

12

eissn

0027-8424

issn

1091-6490

pii

0700715104

journal_volume

104

pub_type

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