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Spectral Libraries in proteomics

ABSTRACT: evaluated approaches for building a spectral library in plasma proteomics on a timsTOF HT system. Furthermore, the relationship between measurement time, library depth and number of protein and peptide identification for semi-high throughput plasma proteomics applications was assessed.

INSTRUMENT(S):

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Blood Plasma

SUBMITTER: Pieter Langerhorst

LAB HEAD: Pieter Langerhorst

PROVIDER: PXD058337 | Pride | 2025-11-17

REPOSITORIES: Pride

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			Action	DRS
	HC1-30SPD_Repl1_S4-A1_1_8993.d.ZIP	Other
	HC1-30SPD_Repl2_S4-B1_1_8994.d.ZIP	Other
	HC1-30SPD_Repl3_S4-C1_1_8995.d.ZIP	Other
	HC1-60SPD_Repl1_S3-A1_1_8962.d.ZIP	Other
	HC1-60SPD_Repl2_S3-B1_1_8963.d.ZIP	Other

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Publications

Considering Measurement Time and Depth in diaPASEF Plasma Proteomics.

Smit Eva R ER van der Zwaan Carmen C Groten Stijn A SA van den Biggelaar Maartje M Hoogendijk Arie J AJ Langerhorst Pieter P

Journal of proteome research 20251022 11

Mass spectrometry (MS)-based plasma proteomics is a powerful approach to unraveling the biology or pathophysiology in large clinical cohorts. Implementation of data-independent acquisition in combination with ion mobility approaches (diaPASEF) has enabled high-throughput analysis with increasing proteomic depth. DIA-based methods are dependent upon experimental or in-silico-generated spectral libraries, yet there is a lack of consensus in the field about which library produces superior results i ...[more]

PMID: 41125229

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