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miRmap web: comprehensive microRNA target prediction online

Vejnar, Charles E. ; Blum, Matthias ; Zdobnov, Evgeny M.

In: Nucleic Acids Research, 2013, vol. 41, no. W1, p. W165-W168

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    Titre
    • miRmap web: comprehensive microRNA target prediction online
    Auteur
    • Vejnar, Charles E.. Department of Genetic Medicine and Development, University of Geneva Medical School, Geneva, Switzerland, Swiss Institute of Bioinformatics, Geneva, Switzerland and Imperial College London, South Kensington Campus, London, UK
    • Blum, Matthias. Department of Genetic Medicine and Development, University of Geneva Medical School, Geneva, Switzerland, Swiss Institute of Bioinformatics, Geneva, Switzerland and Imperial College London, South Kensington Campus, London, UK
    • Zdobnov, Evgeny M.. Department of Genetic Medicine and Development, University of Geneva Medical School, Geneva, Switzerland, Swiss Institute of Bioinformatics, Geneva, Switzerland and Imperial College London, South Kensington Campus, London, UK
    Type de document
    • Postprint
    Langue
    • Anglais
    Publié dans
    • Nucleic Acids Research, 2013, vol. 41, no. W1, p. W165-W168. Oxford University Press
    Autre version électronique
    Classification
    • Santé
    Mots clés
    Identifiant OAI-PMH
    • oai:doc.rero.ch:294656
    Summary
    MicroRNAs (miRNAs) posttranscriptionally repress the expression of protein-coding genes. Based on the partial complementarity between miRNA and messenger RNA pairs with a mandatory so-called ‘seed' sequence, many thousands of potential targets can be identified. Our open-source software library, miRmap, ranks these potential targets with a biologically meaningful criterion, the repression strength. MiRmap combines thermodynamic, evolutionary, probabilistic and sequence-based features, which cover features from TargetScan, PITA, PACMIT and miRanda. Our miRmap web application offers a user-friendly and feature-rich resource for browsing precomputed miRNA target predictions for model organisms, as well as for predicting and ranking targets for user-submitted sequences. MiRmap web integrates sorting, filtering and exporting of results from multiple queries, as well as providing programmatic access, and is available at http://mirmap.ezlab.org