Article (Scientific journals)
PREDetector: A new tool to identify regulatory elements in bacterial genomes
Hiard, Samuel; Marée, Raphaël; Colson, Séverine et al.
2007In Biochemical and Biophysical Research Communications, 357 (4), p. 861-864
Peer reviewed
 

Files


Full Text
hiard2007-PREDetector-elsevier.pdf
Publisher postprint (209.01 kB)
Download

http://www.montefiore.ulg.ac.be/~hiard/PreDetector/


All documents in ORBi are protected by a user license.

Send to



Details



Keywords :
regulon prediction; transcriptional regulation; regulatory networks; position weight matrix; DNA-binding motif
Abstract :
[en] In the post-genomic area, the prediction of transcription factor regulons by position weight matrix-based programmes is a powerful approach to decipher biological pathways and to modelize regulatory networks in bacteria. The main difficulty once a regulon prediction is available is to estimate its reliability prior to start expensive experimental validations and therefore trying to find a way how to identify true positive hits from an endless list of potential target genes of a regulatory protein. Here we introduce PREDetector (Prokaryotic Regulatory Elements Detector), a tool developed for predicting regulons of DNA-binding proteins in bacterial genomes that, beside the automatic prediction, scoring and positioning of potential binding sites and their respective target genes in annotated bacterial genomes, it also provides an easy way to estimate the thresholds where to find reliable possible new target genes. PREDetector can be downloaded freely at http://www.montefiore.ulg.ac.be/-hiard/PreDetector (c) 2007 Published by Elsevier Inc.
Research center :
Systmod
Disciplines :
Biochemistry, biophysics & molecular biology
Author, co-author :
Hiard, Samuel ;  Université de Liège - ULiège > Dép. d'électric., électron. et informat. (Inst.Montefiore) > Systèmes et modélisation
Marée, Raphaël  ;  Université de Liège - ULiège > GIGA-Management : Plateforme bioinformatique
Colson, Séverine ;  Université de Liège - ULiège > Centre d'ingénierie des protéines
Hoskisson, Paul A.;  University of Aberdeen > Department of Molecular and Cell Biology,
Titgemeyer, Fritz;  Friedrich-Alexander-Universität Erlangen-Nürnberg > Lehrstuhl für Mikrobiologie
van Wezel, Gilles P.;  Leiden University > Leiden Institute of Chemistry > Microbial Development
Joris, Bernard ;  Université de Liège - ULiège > Centre d'ingénierie des protéines
Wehenkel, Louis  ;  Université de Liège - ULiège > Dép. d'électric., électron. et informat. (Inst.Montefiore) > Systèmes et modélisation
Rigali, Sébastien  ;  Université de Liège - ULiège > Centre d'ingénierie des protéines
Language :
English
Title :
PREDetector: A new tool to identify regulatory elements in bacterial genomes
Publication date :
June 2007
Journal title :
Biochemical and Biophysical Research Communications
ISSN :
0006-291X
eISSN :
1090-2104
Publisher :
Academic Press Inc Elsevier Science, San Diego, United States - California
Volume :
357
Issue :
4
Pages :
861-864
Peer reviewed :
Peer reviewed
Available on ORBi :
since 25 November 2008

Statistics


Number of views
231 (36 by ULiège)
Number of downloads
390 (16 by ULiège)

Scopus citations®
 
73
Scopus citations®
without self-citations
45
OpenCitations
 
82

Bibliography


Similar publications



Contact ORBi