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J Proteome Res. 2016 Nov 4;15(11):3971-3978. Epub 2016 Aug 17.

Missing Protein Landscape of Human Chromosomes 2 and 14: Progress and Current Status.

Author information

1
CALIPHO Group, SIB-Swiss Institute of Bioinformatics, CMU, rue Michel-Servet 1, CH-1211 Geneva 4, Switzerland.
2
Department of Human Protein Sciences, Faculty of Medicine, University of Geneva , CMU, rue Michel-Servet 1, CH-1211 Geneva 4, Switzerland.
3
CEA, DRF, BIG, Laboratoire de Biologie à Grande Echelle, 17, rue des Martyrs, Grenoble F-38054, France.
4
Inserm U1038 , 17, rue des Martyrs, Grenoble F-38054, France.
5
Université de Grenoble , Grenoble F-38054, France.

Abstract

Within the C-HPP, the Swiss and French teams are responsible for the annotation of proteins from chromosomes 2 and 14, respectively. neXtProt currently reports 1231 entries on chromosome 2 and 624 entries on chromosome 14; of these, 134 and 93 entries are still not experimentally validated and are thus considered as "missing proteins" (PE2-4), respectively. Among these entries, some may never be validated by conventional MS/MS approaches because of incompatible biochemical features. Others have already been validated but are still awaiting annotation. On the basis of information retrieved from the literature and from three of the main C-HPP resources (Human Protein Atlas, PeptideAtlas, and neXtProt), a subset of 40 theoretically detectable missing proteins (25 on chromosome 2 and 15 on chromosome 14) was defined for upcoming targeted studies in sperm samples. This list is proposed as a roadmap for the French and Swiss teams in the near future.

KEYWORDS:

Human Proteome Project; RNA sequencing; bioinformatics; data mining; mass spectrometry proteomics; missing proteins

PMID:
27487287
DOI:
10.1021/acs.jproteome.6b00443
[Indexed for MEDLINE]

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