neXtProt: Organizing Protein Knowledge in the Context of Human Proteome Projects
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- 作者：Pascale Gaudet ; Ghislaine Argoud-Puy ; Isabelle Cusin ; Paula Duek ; Olivier Evalet ; Alain Gateau ; Anne Gleizes ; Mario Pereira ; Monique Zahn-Zabal ; Catherine Zwahlen ; Amos Bairoch ; Lydie Lane
- 刊名：Journal of Proteome Research
- 出版年：2013
- 出版时间：January 4, 2013
- 年：2013
- 卷：12
- 期：1
- 页码：293-298
- 全文大小：250K
- 年卷期：v.12,no.1(January 4, 2013)
- ISSN：1535-3907
文摘
About 5000 (25%) of the 20400 human protein-coding genes currently lack any experimental evidence at the protein level. For many others, there is only little information relative to their abundance, distribution, subcellular localization, interactions, or cellular functions. The aim of the HUPO Human Proteome Project (HPP, www.thehpp.org) is to collect this information for every human protein. HPP is based on three major pillars: mass spectrometry (MS), antibody/affinity capture reagents (Ab), and bioinformatics-driven knowledge base (KB). To meet this objective, the Chromosome-Centric Human Proteome Project (C-HPP) proposes to build this catalog chromosome-by-chromosome (www.c-hpp.org) by focusing primarily on proteins that currently lack MS evidence or Ab detection. These are termed 鈥渕issing proteins鈥?by the HPP consortium. The lack of observation of a protein can be due to various factors including incorrect and incomplete gene annotation, low or restricted expression, or instability. neXtProt (www.nextprot.org) is a new web-based knowledge platform specific for human proteins that aims to complement UniProtKB/Swiss-Prot (www.uniprot.org) with detailed information obtained from carefully selected high-throughput experiments on genomic variation, post-translational modifications, as well as protein expression in tissues and cells. This article describes how neXtProt contributes to prioritize C-HPP efforts and integrates C-HPP results with other research efforts to create a complete human proteome catalog.