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Composite module analyst: A fitness-based tool for prediction of transcription regulation

Author:
Kel, Alexander [DBLP] ;
Konovalova, Tatiana [DBLP] ;
Waleev, Tagir [DBLP] ;
Cheremushkin, Evgeny [DBLP] ;
Kel-Margoulis, Olga [DBLP] ;
Wingender, Edgar [DBLP]
Abstract
Functionally related genes involved in the same molecular-genetic, biochemical, or physiological process are often regulated coordinately Such regulation is provided by precisely organized binding of a multiplicity of special proteins (transcription factors) to their target sites (cis-elements) in regulatory regions of genes. Cis-element combinations provide a structural basis for the generation of unique patterns of gene expression. Here we present a new approach for defining promoter models based on composition of transcription factor binding sites and their pairs. We utilize a multicomponent fitness function for selection of that promoter model fitting best to the observed gene expression profile. We demonstrate examples of successful application of the fitness function with the help of a genetic algorithm for the analysis of functionally related or co-expressed genes as well as testing on simulated data.
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Kel, A., Konovalova, T., Waleev, T., Cheremushkin, E., Kel-Margoulis, O. & Wingender, E., (2005). Composite module analyst: A fitness-based tool for prediction of transcription regulation. In: Torda, A., Kurtz, S. & Rarey, M. (Hrsg.), German Conference on Bioinformatics 2005 (GCB 2005). Bonn: Gesellschaft für Informatik e.V.. (S. 63-75).
@inproceedings{mci/Kel2005,
author = {Kel, Alexander AND Konovalova, Tatiana AND Waleev, Tagir AND Cheremushkin, Evgeny AND Kel-Margoulis, Olga AND Wingender, Edgar},
title = {Composite module analyst: A fitness-based tool for prediction of transcription regulation},
booktitle = {German Conference on Bioinformatics 2005 (GCB 2005)},
year = {2005},
editor = {Torda, Andrew AND Kurtz, Stefan AND Rarey, Matthias} ,
pages = { 63-75 },
publisher = {Gesellschaft für Informatik e.V.},
address = {Bonn}
}
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More Info

ISBN: 3-88579-400-4
ISSN: 1617-5468
xmlui.MetaDataDisplay.field.date: 2005
Language: en (en)
Content Type: Text/Conference Paper
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Gesellschaft für Informatik e.V. (GI), Kontakt: Geschäftsstelle der GI
Diese Digital Library basiert auf DSpace.