DPHL v.2: An updated and comprehensive DIA pan-human assay library for quantifying more than 14,000 proteins.
Journal
Patterns (New York, N.Y.)
ISSN: 2666-3899
Titre abrégé: Patterns (N Y)
Pays: United States
ID NLM: 101767765
Informations de publication
Date de publication:
14 Jul 2023
14 Jul 2023
Historique:
received:
06
01
2023
revised:
29
04
2023
accepted:
12
06
2023
medline:
31
7
2023
pubmed:
31
7
2023
entrez:
31
7
2023
Statut:
epublish
Résumé
A comprehensive pan-human spectral library is critical for biomarker discovery using mass spectrometry (MS)-based proteomics. DPHL v.1, a previous pan-human library built from 1,096 data-dependent acquisition (DDA) MS data of 16 human tissue types, allows quantifying of 10,943 proteins. Here, we generated DPHL v.2 from 1,608 DDA-MS data. The data included 586 DDA-MS data acquired from 18 tissue types, while 1,022 files were derived from DPHL v.1. DPHL v.2 thus comprises data from 24 sample types, including several cancer types (lung, breast, kidney, and prostate cancer, among others). We generated four variants of DPHL v.2 to include semi-tryptic peptides and protein isoforms. DPHL v.2 was then applied to two colorectal cancer cohorts. The numbers of identified and significantly dysregulated proteins increased by at least 21.7% and 14.2%, respectively, compared with DPHL v.1. Our findings show that the increased human proteome coverage of DPHL v.2 provides larger pools of potential protein biomarkers.
Identifiants
pubmed: 37521047
doi: 10.1016/j.patter.2023.100792
pii: S2666-3899(23)00147-2
pmc: PMC10382975
doi:
Types de publication
Journal Article
Langues
eng
Pagination
100792Informations de copyright
© 2023 The Author(s).
Déclaration de conflit d'intérêts
T.G. is shareholder of Westlake Omics, Inc. N.X., X.Y., and W.L. were employees of Westlake Omics, Inc., when they participated in this project.
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