Identification of Transcription Factor Binding Sites in Streptomyces coelicolor A3(2) by Phylogenetic Comparison

Fabrice Touzain; Patricia Lavigne; Isabelle Debled-Rennesson; Bertrand Aigle; Pierre Leblond; Gregory Kucherov

inria-00099608, version 1

Identification of Transcription Factor Binding Sites in Streptomyces coelicolor A3(2) by Phylogenetic Comparison

Fabrice Touzain ()^a^, 1, Patricia Lavigne^a^, 1, Isabelle Debled-Rennesson^a^, 1, Bertrand Aigle^b, Pierre Leblond^b, Gregory Kucherov^a^, 1

European Conference for Computer Biology - ECCB'2003 (2003)

Abstract: The goal of this work is to identify, through computer methods, nucleotide patterns involved in transcription mechanisms in the bacteria Streptomyces coelicolor. In a preceding work [1], we explored the hypothesis of over-representation of regulation motifs in intergenic regions between genes of opposite orientation. While we were able to find by this method binding sites reported in literature, the number of false positives was too high to surely isolate any new interesting candidate motif. To obtain more reliable data, we turned to the comparative approach among phylogenetically related bacteria.

a – INRIA
b – UMR-INRA-UHP 1128
1: ADAGE (INRIA Lorraine - LORIA)
INRIA – CNRS : UMR7503 – Université Henri Poincaré - Nancy I – Université Nancy II – Institut National Polytechnique de Lorraine (INPL)

inria-00099608, version 1
http://hal.inria.fr/inria-00099608
oai:hal.inria.fr:inria-00099608
From: Publications Loria <>
Submitted on: Tuesday, 26 September 2006 09:39:21
Updated on: Thursday, 28 September 2006 15:22:46

See detailed view

Export

Bibtex EndNote TEI RefWorks

<?xml version="1.0" encoding="UTF-8"?>
<listBibl xmlns="http://www.tei-c.org/ns/1.0" xmlns:xlink="http://www.w3.org/1999/xlink" xmlns:mml="http://www.w3.org/1998/Math/MathML">
<listBibl type="inproceedings"><head>Peer-reviewed conferences/proceedings</head>
<biblStruct type="inproceedings" xml:id="inria-00099608"><analytic>
<author><persName><forename>Fabrice</forename><surname>Touzain</surname></persName>
<affiliation>
<orgName type="laboratory">INRIA Lorraine - LORIA</orgName>
<orgName type="team">ADAGE</orgName>
<country>FR</country>
<orgName type="institution">INRIA</orgName>
<orgName type="institution">CNRS : UMR7503</orgName>
<orgName type="institution">Université Henri Poincaré - Nancy I</orgName>
<orgName type="institution">Université Nancy II</orgName>
<orgName type="institution">Institut National Polytechnique de Lorraine (INPL)</orgName>
</affiliation>
</author>
<author><persName><forename>Patricia</forename><surname>Lavigne</surname></persName>
<affiliation>
<orgName type="laboratory">INRIA Lorraine - LORIA</orgName>
<orgName type="team">ADAGE</orgName>
<country>FR</country>
<orgName type="institution">INRIA</orgName>
<orgName type="institution">CNRS : UMR7503</orgName>
<orgName type="institution">Université Henri Poincaré - Nancy I</orgName>
<orgName type="institution">Université Nancy II</orgName>
<orgName type="institution">Institut National Polytechnique de Lorraine (INPL)</orgName>
</affiliation>
</author>
<author><persName><forename>Isabelle</forename><surname>Debled-Rennesson</surname></persName>
<affiliation>
<orgName type="laboratory">INRIA Lorraine - LORIA</orgName>
<orgName type="team">ADAGE</orgName>
<country>FR</country>
<orgName type="institution">INRIA</orgName>
<orgName type="institution">CNRS : UMR7503</orgName>
<orgName type="institution">Université Henri Poincaré - Nancy I</orgName>
<orgName type="institution">Université Nancy II</orgName>
<orgName type="institution">Institut National Polytechnique de Lorraine (INPL)</orgName>
</affiliation>
</author>
<author><persName><forename>Bertrand</forename><surname>Aigle</surname></persName></author>
<author><persName><forename>Pierre</forename><surname>Leblond</surname></persName></author>
<author><persName><forename>Gregory</forename><surname>Kucherov</surname></persName>
<affiliation>
<orgName type="laboratory">INRIA Lorraine - LORIA</orgName>
<orgName type="team">ADAGE</orgName>
<country>FR</country>
<orgName type="institution">INRIA</orgName>
<orgName type="institution">CNRS : UMR7503</orgName>
<orgName type="institution">Université Henri Poincaré - Nancy I</orgName>
<orgName type="institution">Université Nancy II</orgName>
<orgName type="institution">Institut National Polytechnique de Lorraine (INPL)</orgName>
</affiliation>
</author>
<title type="main" level="a">Identification of Transcription Factor Binding Sites in Streptomyces coelicolor A3(2) by Phylogenetic Comparison</title></analytic><monogr><meeting>European Conference for Computer Biology - ECCB'2003</meeting><imprint><publisher>none</publisher><pubPlace><settlement>Paris</settlement><country> France</country></pubPlace><biblScope type="publicationDate">2003-00-00</biblScope></imprint></monogr><idno type="HALid">http://hal.inria.fr/inria-00099608</idno></biblStruct>
</listBibl>
</listBibl>