Locating mammalian transcription factor binding sites: A survey of computational and experimental techniques

Laura Elnitski, Victor X. Jin, Peggy J. Farnham, Steven J M Jones

Research output: Contribution to journalArticle

166 Citations (Scopus)

Abstract

Fields such as genomics and systems biology are built on the synergism between computational and experimental techniques. This type of synergism is especially important in accomplishing goals like identifying all functional transcription factor binding sites in vertebrate genomes. Precise detection of these elements is a prerequisite to deciphering the complex regulatory networks that direct tissue specific and lineage specific patterns of gene expression. This review summarizes approaches for in silico, in vitro, and in vivo identification of transcription factor binding sites. A variety of techniques useful for localized- and high-throughput analyses are discussed here, with emphasis on aspects of data generation and verification.

Original languageEnglish (US)
Pages (from-to)1455-1464
Number of pages10
JournalGenome Research
Volume16
Issue number12
DOIs
StatePublished - Dec 2006

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Transcription Factors
Binding Sites
Systems Biology
Genomics
Computer Simulation
Vertebrates
Genome
Gene Expression
Surveys and Questionnaires
In Vitro Techniques

ASJC Scopus subject areas

  • Genetics

Cite this

Locating mammalian transcription factor binding sites : A survey of computational and experimental techniques. / Elnitski, Laura; Jin, Victor X.; Farnham, Peggy J.; Jones, Steven J M.

In: Genome Research, Vol. 16, No. 12, 12.2006, p. 1455-1464.

Research output: Contribution to journalArticle

Elnitski, Laura ; Jin, Victor X. ; Farnham, Peggy J. ; Jones, Steven J M. / Locating mammalian transcription factor binding sites : A survey of computational and experimental techniques. In: Genome Research. 2006 ; Vol. 16, No. 12. pp. 1455-1464.
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