Genomic approaches towards finding cis-regulatory modules in animals

Ross Cameron Hardison, James Taylor

Research output: Contribution to journalReview article

117 Citations (Scopus)

Abstract

Differential gene expression is the fundamental mechanism underlying animal development and cell differentiation. However, it is a challenge to identify comprehensively and accurately the DNA sequences that are required to regulate gene expression: namely, cis-regulatory modules (CRMs). Three major features, either singly or in combination, are used to predict CRMs: clusters of transcription factor binding site motifs, non-coding DNA that is under evolutionary constraint and biochemical marks associated with CRMs, such as histone modifications and protein occupancy. The validation rates for predictions indicate that identifying diagnostic biochemical marks is the most reliable method, and understanding is enhanced by the analysis of motifs and conservation patterns within those predicted CRMs.

Original languageEnglish (US)
Pages (from-to)469-483
Number of pages15
JournalNature Reviews Genetics
Volume13
Issue number7
DOIs
StatePublished - Jul 1 2012

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Histone Code
Gene Expression
Cell Differentiation
Transcription Factors
Binding Sites
DNA
Proteins

All Science Journal Classification (ASJC) codes

  • Molecular Biology
  • Genetics
  • Genetics(clinical)

Cite this

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Genomic approaches towards finding cis-regulatory modules in animals. / Hardison, Ross Cameron; Taylor, James.

In: Nature Reviews Genetics, Vol. 13, No. 7, 01.07.2012, p. 469-483.

Research output: Contribution to journalReview article

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