title: A comprehensive computational model of facilitated diffusion in prokaryotes.
abstract: BACKGROUND
  Gene activity is mediated by site-specific transcription factors (TFs). Their binding to defined regions in the genome determines the rate at which their target genes are transcribed.
  
  
  RESULTS
  We present a comprehensive computational model of the search process of TF for their genomic target site(s). The computational model considers: the DNA sequence, various TF species and the interaction of the individual molecules with the DNA or between themselves. We also demonstrate a systematic approach how to parametrize the system using available experimental data.
authors.affiliation: Cambridge Systems Biology Centre, University of Cambridge, Tennis Court Road, Cambridge, UK. n.r.zabet@gen.cam.ac.uk
authors.forename: Nicolae Radu
authors.initials: NR
authors.lastname: Zabet
authors.forename: Boris
authors.initials: B
authors.lastname: Adryan
mesh_terms: D003198:Computer Simulation; D004247:DNA / Q000737:chemistry / Q000378:metabolism*; D004926:Escherichia coli / Q000378:metabolism*; D055459:Facilitated Diffusion; D056968:Lac Repressors / Q000737:chemistry / Q000378:metabolism*; D008956:Models, Chemical; D013816:Thermodynamics; D015533:Transcriptional Activation
chemical_list: D056968:Lac Repressors; D004247:DNA