Microarray profiling of phage-display selections for rapid mapping of transcription factor-DNA interactions

Gordon Freckleton, Soyeon I. Lippman, James Broach, Saeed Tavazoie

Research output: Contribution to journalArticle

18 Citations (Scopus)

Abstract

Modern computational methods are revealing putative transcription-factor (TF) binding sites at an extraordinary rate. However, the major challenge in studying transcriptional networks is to map these regulatory element predictions to the protein transcription factors that bind them. We have developed a microarray-based profiling of phage-display selection (MaPS) strategy that allows rapid and global survey of an organism's proteome for sequence-specific interactions with such putative DNA regulatory elements. Application to a variety of known yeast TF binding sites successfully identified the cognate TF from the background of a complex whole-proteome library. These factors contain DNA-binding domains from diverse families, including Myb, TEA, MADS box, and C2H2 zinc-finger. Using MaPS, we identified Dot6 as a trans-active partner of the long-predicted orphan yeast element Polymerase A & C (PAC). MaPS technology should enable rapid and proteome-scale study of bi-molecular interactions within transcriptional networks.

Original languageEnglish (US)
JournalPLoS genetics
Volume5
Issue number4
DOIs
StatePublished - Apr 1 2009

Fingerprint

bacteriophages
Bacteriophages
Transcription Factors
Proteome
transcription factors
proteome
DNA
yeast
Gene Regulatory Networks
orphan
binding sites
Yeasts
Binding Sites
yeasts
DNA-binding domains
zinc finger motif
zinc
protein
prediction
Technology

All Science Journal Classification (ASJC) codes

  • Ecology, Evolution, Behavior and Systematics
  • Molecular Biology
  • Genetics
  • Genetics(clinical)
  • Cancer Research

Cite this

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Microarray profiling of phage-display selections for rapid mapping of transcription factor-DNA interactions. / Freckleton, Gordon; Lippman, Soyeon I.; Broach, James; Tavazoie, Saeed.

In: PLoS genetics, Vol. 5, No. 4, 01.04.2009.

Research output: Contribution to journalArticle

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