Document Detail


A comprehensive computational model of facilitated diffusion in prokaryotes.
MedLine Citation:
PMID:  22492644     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
MOTIVATION: 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:
Nicolae Radu Zabet; Boris Adryan
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Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't     Date:  2012-04-06
Journal Detail:
Title:  Bioinformatics (Oxford, England)     Volume:  28     ISSN:  1367-4811     ISO Abbreviation:  Bioinformatics     Publication Date:  2012 Jun 
Date Detail:
Created Date:  2012-05-22     Completed Date:  2013-02-05     Revised Date:  2013-06-26    
Medline Journal Info:
Nlm Unique ID:  9808944     Medline TA:  Bioinformatics     Country:  England    
Other Details:
Languages:  eng     Pagination:  1517-24     Citation Subset:  IM    
Affiliation:
Cambridge Systems Biology Centre, University of Cambridge, Tennis Court Road, Cambridge, UK. n.r.zabet@gen.cam.ac.uk
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MeSH Terms
Descriptor/Qualifier:
Computer Simulation*
DNA / chemistry,  metabolism*
Escherichia coli / metabolism*
Facilitated Diffusion
Lac Repressors / chemistry,  metabolism*
Models, Chemical
Thermodynamics
Transcriptional Activation
Grant Support
ID/Acronym/Agency:
G1002110//Medical Research Council; //Medical Research Council
Chemical
Reg. No./Substance:
0/Lac Repressors; 9007-49-2/DNA
Comments/Corrections

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine


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