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Progress on Identifying and Characterizing the Human Proteome: 2018 Metrics from the HUPO Human Proteome Project
Univ Michigan, Dept Computat Med & Bioinformat, 100 Washtenaw Ave, Ann Arbor, MI 48109 USA.;Inst Syst Biol, 401 Terry Ave North, Seattle, WA 98109 USA..ORCID iD: 0000-0002-8976-6074
Univ Geneva, CMU, CALIPHO Grp, SIB, Michel Servet 1, CH-1211 Geneva 4, Switzerland.;Univ Geneva, CMU, Dept Microbiol & Mol Med, Fac Med, Michel Servet 1, CH-1211 Geneva 4, Switzerland..ORCID iD: 0000-0002-9818-3030
Univ British Columbia, Life Sci Inst, Fac Dent, 2350 Hlth Sci Mall,Room 4-401, Vancouver, BC V6T 1Z3, Canada..
CSIC, Ctr Nacl Biotecnol, Darwin 3, Madrid 28049, Spain..ORCID iD: 0000-0002-0231-5159
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2018 (English)In: Journal of Proteome Research, ISSN 1535-3893, E-ISSN 1535-3907, Vol. 17, no 12, p. 4031-4041Article in journal (Refereed) Published
Abstract [en]

The Human Proteome Project (HPP) annually reports on progress throughout the field in credibly identifying and characterizing the human protein parts list and making proteomics an integral part of multiomics studies in medicine and the life sciences. NeXtProt release 2018-01-17, the baseline for this sixth annual HPP special issue of the Journal of Proteome Research, contains 17 470 PE1 proteins, 89% of all neXtProt predicted PE1-4 proteins, up from 17 008 in release 2017-01-23 and 13 975 in release 2012-02-24. Conversely, the number of neXtProt PE2,3,4 missing proteins has been reduced from 2949 to 2579 to 2186 over the past two years. Of the PEI proteins, 16 092 are based on mass spectrometry results, and 1378 on other kinds of protein studies, notably protein protein interaction findings. PeptideAtlas has 15 798 canonical proteins, up 625 over the past year, including 269 from SUMOylation studies. The largest reason for missing proteins is low abundance. Meanwhile, the Human Protein Atlas has released its Cell Atlas, Pathology Atlas, and updated Tissue Atlas, and is applying recommendations from the International Working Group on Antibody Validation. Finally, there is progress using the quantitative multiplex organ-specific popular proteins targeted proteomics approach in various disease categories.

Place, publisher, year, edition, pages
American Chemical Society (ACS), 2018. Vol. 17, no 12, p. 4031-4041
Keywords [en]
metrics, missing proteins, HPP Guidelines, neXtProt, PeptideAtlas, Human Proteome Project (HPP), Chromosome-centric HPP (C-HPP), Biology and Disease-driven HPP (B/D-HPP), Human Proteome Organization (HUPO)
National Category
Biochemistry and Molecular Biology
Identifiers
URN: urn:nbn:se:kth:diva-240748DOI: 10.1021/acs.jproteome.8b00441ISI: 000452930000002PubMedID: 30099871Scopus ID: 2-s2.0-85052309961OAI: oai:DiVA.org:kth-240748DiVA, id: diva2:1276328
Funder
Knut and Alice Wallenberg FoundationScience for Life Laboratory - a national resource center for high-throughput molecular bioscience
Note

QC 20190108

Available from: 2019-01-08 Created: 2019-01-08 Last updated: 2019-01-08Bibliographically approved

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Schwenk, Jochen M.

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