Protein function easily investigated by genomics data mining using the proteINSIDE online tool | Les fonctions des protéines facilement étudiées par l'extraction des connaissances biologiques pour des données de génomique : utilisation de l'outil en ligne ProteINSIDE
2015
Kaspric, Nicolas | Reichstadt, Matthieu | Picard, Brigitte, B. | Tournayre, Jérémy | Bonnet, Muriel | Unité Mixte de Recherche sur les Herbivores - UMR 1213 (UMRH) ; Institut National de la Recherche Agronomique (INRA)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS) | This study was supported by the regional council of Auvergne in France and APIS-GENE. The funders had no role in study design, data collection and analysis, or preparation of the manuscript. APIS-GENE gave the authors its agreement to publish.
International audience
Show more [+] Less [-]English. Nowadays, genomic and proteomic studies produce vast amounts of data. To get the biological meaning of these data and to generate testable new hypothesis, scientists must use several tools often not designed for ruminant studies. Here we present ProteINSIDE: an online tool to analyse lists of protein or gene identifiers from well-annotated species (human, rat, and mouse) and ruminants (cow, sheep, and goat). The aims of ProteINSIDE modules are to gather biological information stores in well-updated public databases, to proceed to annotations according to the Gene Ontology consortium, to predict potentially secreted proteins, and to search for proteins interactions. ProteINSIDE provides results from several software and databases in a single query. From a list of identifiers, ProteINSIDE uses orthologs or homologs to extend analyses and biological information retrieval. As a tutorial, we presented how to launch, to recover, to view, and to interpret the results provided by the two types of analysis available with ProteINSIDE (basic and custom analyses). ProteINSIDE is freely available using a simple internet browser at www.proteinside.org. The results of this article are provided on the home page of ProteINSIDE website as the example of an analysis results.
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