Ultra-High-Throughput Clinical Proteomics Reveals Classifiers of COVID-19 Infection
Journal article, 2020
The COVID-19 pandemic is an unprecedented global challenge, and point-of-care diagnostic classifiers are urgently required. Here, we present a platform for ultra-high-throughput serum and plasma proteomics that builds on ISO13485 standardization to facilitate simple implementation in regulated clinical laboratories. Our low-cost workflow handles up to 180 samples per day, enables high precision quantification, and reduces batch effects for large-scale and longitudinal studies. We use our platform on samples collected from a cohort of early hospitalized cases of the SARS-CoV-2 pandemic and identify 27 potential biomarkers that are differentially expressed depending on the WHO severity grade of COVID-19. They include complement factors, the coagulation system, inflammation modulators, and pro-inflammatory factors upstream and downstream of interleukin 6. All protocols and software for implementing our approach are freely available. In total, this work supports the development of routine proteomic assays to aid clinical decision making and generate hypotheses about potential COVID-19 therapeutic targets.
antiviral immune response
SWATH-MS
clinical classifiers
high-throughput proteomics
COVID-19 infection
mass spectrometry
Author
Christoph B. Messner
The Francis Crick Institute
Vadim Demichev
The Francis Crick Institute
University of Cambridge
Daniel Wendisch
Charité University Medicine Berlin
Laura Michalick
Charité University Medicine Berlin
Matthew White
The Francis Crick Institute
Anja Freiwald
Charité University Medicine Berlin
Kathrin Textoris-Taube
Charité University Medicine Berlin
Spyros I. Vernardis
The Francis Crick Institute
Anna Sophia Egger
The Francis Crick Institute
Marco Kreidl
The Francis Crick Institute
Daniela Ludwig
Charité University Medicine Berlin
Christiane Kilian
Charité University Medicine Berlin
Federica Agostini
Charité University Medicine Berlin
Aleksej Zelezniak
The Francis Crick Institute
Chalmers, Biology and Biological Engineering, Systems and Synthetic Biology
Charlotte Thibeault
Charité University Medicine Berlin
Moritz Pfeiffer
Charité University Medicine Berlin
Stefan Hippenstiel
Charité University Medicine Berlin
Andreas Hocke
Charité University Medicine Berlin
Christof von Kalle
Charité University Medicine Berlin
Archie Campbell
University of Edinburgh
Caroline Hayward
University of Edinburgh
David J. Porteous
University of Edinburgh
Riccardo E. Marioni
University of Edinburgh
C. Langenberg
University of Cambridge
The Francis Crick Institute
Kathryn S. Lilley
University of Cambridge
Wolfgang M. Kuebler
Charité University Medicine Berlin
Michael Mülleder
Charité University Medicine Berlin
C. Drosten
Charité University Medicine Berlin
Norbert Suttorp
Charité University Medicine Berlin
Martin Witzenrath
Charité University Medicine Berlin
Florian Kurth
Charité University Medicine Berlin
Leif Erik Sander
Charité University Medicine Berlin
M. Ralser
The Francis Crick Institute
Charité University Medicine Berlin
Cell Systems
24054712 (ISSN) 24054720 (eISSN)
Vol. 11 1 11-24.E4Subject Categories
Biomedical Laboratory Science/Technology
Microbiology
Medical Biotechnology
Software Engineering
Computer Systems
Areas of Advance
Health Engineering
DOI
10.1016/j.cels.2020.05.012