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Explicit equilibrium modeling of transcription-factor binding and gene regulation.

Authors
  • Granek, Joshua A
  • Clarke, Neil D
Type
Published Article
Publication Date
Jan 01, 2005
Volume
6
Issue
10
Identifiers
PMID: 16207358
Source
Medline
License
Unknown

Abstract

We have developed a computational model that predicts the probability of transcription factor binding to any site in the genome. GOMER (generalizable occupancy model of expression regulation) calculates binding probabilities on the basis of position weight matrices, and incorporates the effects of cooperativity and competition by explicit calculation of coupled binding equilibria. GOMER can be used to test hypotheses regarding gene regulation that build upon this physically principled prediction of protein-DNA binding.

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