An MSstats workflow for detecting differentially abundant proteins in large-scale data-independent acquisition mass spectrometry experiments with FragPipe processing-Reference-Cited by-同舟云学术

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An MSstats workflow for detecting differentially abundant proteins in large-scale data-independent acquisition mass spectrometry experiments with FragPipe processing

Published:2024-05-20 Issue: Volume: Page:
ISSN:1754-2189
Container-title:Nature Protocols
language:en
Short-container-title:Nat Protoc

Author:

Kohler Devon^ORCID,Staniak Mateusz^ORCID,Yu Fengchao^ORCID,Nesvizhskii Alexey I.^ORCID,Vitek Olga^ORCID

Funder

National Science Foundation

U.S. Department of Health & Human Services | National Institutes of Health

Publisher

Springer Science and Business Media LLC

Link

https://www.nature.com/articles/s41596-024-01000-3.pdf

Reference45 articles.

1. Shuken, S. R. An introduction to mass spectrometry-based proteomics. J. Proteom. Res. 22, 2151–2171 (2023).

2. Aebersold, R. & Mann, M. Mass spectrometry-based proteomics. Nature 422, 198–207 (2003).

3. Ong, S.-E. & Mann, M. Mass spectrometry–based proteomics turns quantitative. Nat. Chem. Biol. 1, 252–262 (2005).

4. Borràs, E. & Sabidó, E. What is targeted proteomics? A concise revision of targeted acquisition and targeted data analysis in mass spectrometry. Proteomics 17, 1700180 (2017).

5. Mann, M. & Jensen, O. N. Proteomic analysis of post-translational modifications. Nat. Biotechnol. 21, 255–261 (2003).

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