Journal Article

A toolbox for validation of mass spectrometry peptides identification and generation of database: IRMa

Véronique Dupierris, Christophe Masselon, Magali Court, Sylvie Kieffer-Jaquinod and Christophe Bruley

in Bioinformatics

Volume 25, issue 15, pages 1980-1981
Published in print August 2009 | ISSN: 1367-4803
Published online May 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp301
A toolbox for validation of mass spectrometry peptides identification and generation of database: IRMa

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Summary: The IRMa toolbox provides an interactive application to assist in the validation of Mascot® search results. It allows automatic filtering of Mascot® identification results as well as manual confirmation or rejection of individual PSM (a match between a fragmentation mass spectrum and a peptide). Dynamic grouping and coherence of information are maintained by the software in real time. Validated results can be exported under various forms, including an identification database (MSIdb). This allows biologists to compile search results from a whole study in a unique repository in order to provide a summarized view of their project. IRMa also features a fully automated version that can be used in a high-throughput pipeline. Given filter parameters, it can delete hits with no significant PSM, regroup hits identified by the same peptide(s) and export the result to the specified format without user intervention.

Availability: http://biodev.extra.cea.fr/docs/irma (java 1.5 or higher needed)

Contact: christophe.bruley@cea.fr

Journal Article.  1264 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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