Literature DB >> 17993681

Discovery of conserved motifs in promoters of orthologous genes in prokaryotes.

Rekin's Janky1, Jacques van Helden.   

Abstract

We present a method to predict cis-acting elements for a given gene by detecting over-represented motifs in promoters of a set of ortholo gous genes in prokaryotes (single-gene, multiple-genomes approach). The method has been used successfully to detect regulatory elements at various taxonomical levels in prokaryotes. A web interface is available at the Regulatory Sequence Analysis Tools site (http://rsat.scmbb.ulb.ac.be/rsat/).

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Year:  2007        PMID： 17993681     DOI： 10.1007/978-1-59745-514-5_18

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN： 1064-3745


  6 in total

1.  The promoter architectural landscape of the Salmonella PhoP regulon.

Authors:  Igor Zwir; Tammy Latifi; J Christian Perez; Henry Huang; Eduardo A Groisman
Journal:  Mol Microbiol       Date:  2012-03-27       Impact factor: 3.501

2.  Defining the plasticity of transcription factor binding sites by Deconstructing DNA consensus sequences: the PhoP-binding sites among gamma/enterobacteria.

Authors:  Oscar Harari; Sun-Yang Park; Henry Huang; Eduardo A Groisman; Igor Zwir
Journal:  PLoS Comput Biol       Date:  2010-07-22       Impact factor: 4.475

3.  RSAT 2011: regulatory sequence analysis tools.

Authors:  Morgane Thomas-Chollier; Matthieu Defrance; Alejandra Medina-Rivera; Olivier Sand; Carl Herrmann; Denis Thieffry; Jacques van Helden
Journal:  Nucleic Acids Res       Date:  2011-07       Impact factor: 16.971

4.  RSAT 2015: Regulatory Sequence Analysis Tools.

Authors:  Alejandra Medina-Rivera; Matthieu Defrance; Olivier Sand; Carl Herrmann; Jaime A Castro-Mondragon; Jeremy Delerce; Sébastien Jaeger; Christophe Blanchet; Pierre Vincens; Christophe Caron; Daniel M Staines; Bruno Contreras-Moreira; Marie Artufel; Lucie Charbonnier-Khamvongsa; Céline Hernandez; Denis Thieffry; Morgane Thomas-Chollier; Jacques van Helden
Journal:  Nucleic Acids Res       Date:  2015-04-22       Impact factor: 16.971

5.  Evaluation of phylogenetic footprint discovery for predicting bacterial cis-regulatory elements and revealing their evolution.

Authors:  Rekin's Janky; Jacques van Helden
Journal:  BMC Bioinformatics       Date:  2008-01-23       Impact factor: 3.169

6.  RSAT: regulatory sequence analysis tools.

Authors:  Morgane Thomas-Chollier; Olivier Sand; Jean-Valéry Turatsinze; Rekin's Janky; Matthieu Defrance; Eric Vervisch; Sylvain Brohée; Jacques van Helden
Journal:  Nucleic Acids Res       Date:  2008-05-21       Impact factor: 16.971
  6 in total

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