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TFM-Explorer: mining cis-regulatory regions in genomes

Tonon Laurie 1 Hélène Touzet 1, 2 Jean-Stéphane Varré 1, 2 
1 BONSAI - Bioinformatics and Sequence Analysis
LIFL - Laboratoire d'Informatique Fondamentale de Lille, Inria Lille - Nord Europe
Abstract : DNA-binding transcription factors (TFs) play a central role in transcription regulation, and computational approaches that help in elucidating complex mechanisms governing this basic biological process are of great use. In this perspective, we present the TFM-Explorer web server that is a toolbox to identify putative TF binding sites within a set of upstream regulatory sequences of genes sharing some regulatory mechanisms. TFM-Explorer finds local regions showing overrepresentation of binding sites. Accepted organisms are human, mouse, rat, chicken and drosophila. The server employs a number of features to help users to analyze their data: visualization of selected binding sites on genomic sequences, and selection of cis-regulatory modules. TFM-Explorer is available at
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Submitted on : Friday, May 17, 2013 - 9:24:09 AM
Last modification on : Thursday, January 20, 2022 - 5:28:43 PM

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Tonon Laurie, Hélène Touzet, Jean-Stéphane Varré. TFM-Explorer: mining cis-regulatory regions in genomes. Nucleic Acids Research, Oxford University Press, 2010, 38 (S2), pp.W286-W292. ⟨10.1093/nar/gkq473⟩. ⟨hal-00823465⟩



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