Proteomics Standards Initiative: Fifteen Years of Progress and Future Work



Deutsch, Eric W, Orchard, Sandra, Binz, Pierre-Alain, Bittremieux, Wout, Eisenacher, Martin, Hermjakob, Henning, Kawano, Shin, Lam, Henry, Mayer, Gerhard, Menschaert, Gerben
et al (show 7 more authors) (2017) Proteomics Standards Initiative: Fifteen Years of Progress and Future Work. JOURNAL OF PROTEOME RESEARCH, 16 (12). pp. 4288-4298.

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Abstract

The Proteomics Standards Initiative (PSI) of the Human Proteome Organization (HUPO) has now been developing and promoting open community standards and software tools in the field of proteomics for 15 years. Under the guidance of the chair, cochairs, and other leadership positions, the PSI working groups are tasked with the development and maintenance of community standards via special workshops and ongoing work. Among the existing ratified standards, the PSI working groups continue to update PSI-MI XML, MITAB, mzML, mzIdentML, mzQuantML, mzTab, and the MIAPE (Minimum Information About a Proteomics Experiment) guidelines with the advance of new technologies and techniques. Furthermore, new standards are currently either in the final stages of completion (proBed and proBAM for proteogenomics results as well as PEFF) or in early stages of design (a spectral library standard format, a universal spectrum identifier, the qcML quality control format, and the Protein Expression Interface (PROXI) web services Application Programming Interface). In this work we review the current status of all of these aspects of the PSI, describe synergies with other efforts such as the ProteomeXchange Consortium, the Human Proteome Project, and the metabolomics community, and provide a look at future directions of the PSI.

Item Type: Article
Uncontrolled Keywords: data standard, database, mass spectrometry, proteomics, metabolomics, protein identification, protein quantification, molecular interactions, bioinformatics software, quality control
Depositing User: Symplectic Admin
Date Deposited: 27 Feb 2019 10:58
Last Modified: 19 Jan 2023 01:01
DOI: 10.1021/acs.jproteome.7b00370
Open Access URL: http://dx.doi.org/10.1021/acs.jproteome.7b00370
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URI: https://livrepository.liverpool.ac.uk/id/eprint/3033496