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Mass Spectrometry-Based Plasma Proteomics: Considerations from Sample Collection to Achieving Translational Data
Murdoch Childrens Res Inst, Haematol Res, Parkville, Vic 3052, Australia.;Univ Melbourne, Dept Paediat, Parkville, Vic 3052, Australia..
Univ Copenhagen, Fac Hlth Sci, NNF Ctr Prot Res, DK-2200 Copenhagen, Denmark.;Max Planck Inst Biochem, Dept Prote & Signal Transduct, D-82152 Martinsried, Germany..
Freenome, 259 East Grand Ave, San Francisco, CA 94080 USA..ORCID iD: 0000-0003-0203-9016
Murdoch Childrens Res Inst, Haematol Res, Parkville, Vic 3052, Australia..
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2019 (English)In: Journal of Proteome Research, ISSN 1535-3893, E-ISSN 1535-3907, Vol. 18, no 12, p. 4085-4097Article, review/survey (Refereed) Published
Abstract [en]

The proteomic analysis of human blood and blood-derived products (e.g., plasma) offers an attractive avenue to translate research progress from the laboratory into the clinic. However, due to its unique protein composition, performing proteomics assays with plasma is challenging. Plasma proteomics has regained interest due to recent technological advances, but challenges imposed by both complications inherent to studying human biology (e.g., interindividual variability) and analysis of biospecimens (e.g., sample variability), as well as technological limitations remain. As part of the Human Proteome Project (HPP), the Human Plasma Proteome Project (HPPP) brings together key aspects of the plasma proteomics pipeline. Here, we provide considerations and recommendations concerning study design, plasma collection, quality metrics, plasma processing workflows, mass spectrometry (MS) data acquisition, data processing, and bioinformatic analysis. With exciting opportunities in studying human health and disease though this plasma proteomics pipeline, a more informed analysis of human plasma will accelerate interest while enhancing possibilities for the incorporation of proteomics-scaled assays into clinical practice.

Place, publisher, year, edition, pages
American Chemical Society (ACS), 2019. Vol. 18, no 12, p. 4085-4097
Keywords [en]
plasma, serum, blood, Human Proteome Project (HPP), Human Plasma Proteome Project (HPPP), study design, sample collection, quality metrics, plasma processing workflows, data acquisition, mass spectrometry (MS), data processing, bioinformatic analysis
National Category
Biological Sciences
Identifiers
URN: urn:nbn:se:kth:diva-266233DOI: 10.1021/acs.jproteome.9b00503ISI: 000502164100002PubMedID: 31573204OAI: oai:DiVA.org:kth-266233DiVA, id: diva2:1382582
Note

QC 20200103

Available from: 2020-01-03 Created: 2020-01-03 Last updated: 2020-01-03Bibliographically approved

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Schwenk, Jochen M.

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