A simple, time- and cost-effective, high-throughput depletion strategy for deep plasma proteomics

Arthur Viode; Patrick van Zalm; Kinga K Smolen; Benoit Fatou; David Stevenson; Meenakshi Jha; Ofer Levy; Judith Steen; Hanno Steen; IMPACC Network

doi:10.1126/sciadv.adf9717

A simple, time- and cost-effective, high-throughput depletion strategy for deep plasma proteomics

Sci Adv. 2023 Mar 29;9(13):eadf9717. doi: 10.1126/sciadv.adf9717. Epub 2023 Mar 29.

Authors

Arthur Viode^{1

2}, Patrick van Zalm^{1

2

3}, Kinga K Smolen^{2

4}, Benoit Fatou^{1

2}, David Stevenson¹, Meenakshi Jha¹, Ofer Levy^{2

4

5}, Judith Steen^{3

6}, Hanno Steen^{1

2

4}; IMPACC Network

Affiliations

¹ Department of Pathology, Boston Children's Hospital, Boston, MA, USA.
² Harvard Medical School, Boston, MA, USA.
³ Department of Neuropsychology and Psychopharmacology, EURON, Faculty of Psychology and Neuroscience, Maastricht University, Maastricht, Netherlands.
⁴ Precision Vaccines Program, Division of Infectious Diseases, Boston Children's Hospital, Boston, MA, USA.
⁵ Broad Institute of MIT and Harvard, Cambridge, MA, USA.
⁶ F. M. Kirby Neurobiology Center, Boston Children's Hospital, Boston, MA, USA.

Abstract

We introduce a cost-effective, robust high-throughput-compatible plasma depletion method enabling in-depth profiling of plasma that detects >1300 proteins per run with a throughput of 60 samples per day. The method has been fully validated by processing >3000 samples with no apparent batch effect at a cost for the depletion step of ~$2.5 per sample.

A simple, time- and cost-effective, high-throughput depletion strategy for deep plasma proteomics

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