Journal
JOURNAL OF PROTEOME RESEARCH
Volume 17, Issue 12, Pages 4031-4041Publisher
AMER CHEMICAL SOC
DOI: 10.1021/acs.jproteome.8b00441
Keywords
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)
Categories
Funding
- National Institutes of Health [P30ES017885-01A1, NIH U24CA210967]
- NIH [R01GM087221, R24GM127667, U54EB020406]
- neXtProt from the SIB Swiss Institute of Bioinformatics
- Canadian Institutes of Health Research 7-year Foundation Grant
- Canada Research Chair in Protease Proteomics and Systems Biology
- NHMRC Project Grant [APP 1010303]
- Knut and Alice Wallenberg Foundation
- Korean Ministry of Health and Welfare [HI13C22098, HI16C0257]
- NATIONAL CANCER INSTITUTE [U24CA210967] Funding Source: NIH RePORTER
- NATIONAL INSTITUTE OF BIOMEDICAL IMAGING AND BIOENGINEERING [U54EB020406] Funding Source: NIH RePORTER
- NATIONAL INSTITUTE OF ENVIRONMENTAL HEALTH SCIENCES [P30ES017885] Funding Source: NIH RePORTER
- NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES [R24GM127667, R01GM087221] Funding Source: NIH RePORTER
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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.
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