A standardized framing for reporting protein identifications in mzIdentML 1.2

Détails

Ressource 1Télécharger: BIB_D9954941A3E7.P001.pdf (1215.13 [Ko])
Etat: Public
Version: de l'auteur
ID Serval
serval:BIB_D9954941A3E7
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Institution
Titre
A standardized framing for reporting protein identifications in mzIdentML 1.2
Périodique
Proteomics
Auteur(s)
Seymour S.L., Farrah T., Binz P.A., Chalkley R.J., Cottrell J.S., Searle B.C., Tabb D.L., Vizcaíno J.A., Prieto G., Uszkoreit J., Eisenacher M., Martínez-Bartolomé S., Ghali F., Jones A.R.
ISSN
1615-9853 (Print)
1615-9861 (Electronic)
ISSN-L
1615-9853
Statut éditorial
Publié
Date de publication
2015
Peer-reviewed
Oui
Volume
14
Numéro
0
Pages
2389-2399
Langue
anglais
Notes
Publication types: Article ; research-article Identifiant PubMed Central: PMC4384534
Résumé
Inferring which protein species have been detected in bottom-up proteomics experiments has been a challenging problem for which solutions have been maturing over the past decade. While many inference approaches now function well in isolation, comparing and reconciling the results generated across different tools remains difficult. It presently stands as one of the greatest barriers in collaborative efforts such as the Human Proteome Project and public repositories such as the PRoteomics IDEntifications (PRIDE) database. Here we present a framework for reporting protein identifications that seeks to improve capabilities for comparing results generated by different inference tools. This framework standardizes the terminology for describing protein identification results, associated with the HUPO-Proteomics Standards Initiative (PSI) mzIdentML standard, while still allowing for differing methodologies to reach that final state. It is proposed that developers of software for reporting identification results will adopt this terminology in their outputs. While the new terminology does not require any changes to the core mzIdentML model, it represents a significant change in practice, and, as such, the rules will be released via a new version of the mzIdentML specification (version 1.2) so that consumers of files are able to determine whether the new guidelines have been adopted by export software.
Mots-clé
Mass Spectrometry/methods, Mass Spectrometry/standards, Proteins/analysis, Proteomics/methods, Proteomics/standards, Software/standards
Pubmed
Web of science
Open Access
Oui
Création de la notice
25/07/2016 8:19
Dernière modification de la notice
20/08/2019 15:58
Données d'usage