PepPSy: a web server to prioritize gene products in experimental and biocuration workflows

Olivier Sallou (1, 2) , Paula D. Duek (3) , Thomas A. Darde (4) , Olivier Collin (2, 1) , Lydie Lane (3, 5) , Frédéric Chalmel (4)

1 SED [Rennes] - Service Expérimentation et Développement
2 Plateforme bioinformatique GenOuest [Rennes]
3 SIB - Swiss Institute of Bioinformatics [Lausanne]
4 Irset - Institut de recherche en santé, environnement et travail
5 Département de science des protéines humaines [Genève]

Among the 20 000 human gene products predicted from genome annotation, about 3000 still lack validation at protein level. We developed PepPSy, a user-friendly gene expression-based prioritization system, to help investigators to determine in which human tissues they should look for an unseen protein. PepPSy can also be used by biocurators to revisit the annotation of specific categories of proteins based on the 'omics' data housed by the system. In this study, it was used to prioritize 21 dubious protein-coding genes among the 616 annotated in neXtProt for reannotation.

Keywords: ANNOTATION; SPECIFICITY; TRANSCRIPTOMICS; DATABASE; IDENTIFICATION; PROTEINS; DATA SETS; HUMAN PROTEOME PROJECT; DISCOVERY; VALIDATION

Domains: Life Sciences [q-bio]; Ecology, environment; Health

Olivier Sallou, Paula D. Duek, Thomas A. Darde, Olivier Collin, Lydie Lane, et al.. PepPSy: a web server to prioritize gene products in experimental and biocuration workflows. Database - The journal of Biological Databases and Curation, 2016, 2016, pp.baw070. ⟨10.1093/database/baw070⟩. ⟨hal-01342472⟩