Dataset Information

A multi-purpose, regenerable, proteome-scale, human phosphoserine resource for phosphoproteomics.

ABSTRACT: Mass-spectrometry-based phosphoproteomics has become indispensable for understanding cellular signaling in complex biological systems. Despite the central role of protein phosphorylation, the field still lacks inexpensive, regenerable, and diverse phosphopeptides with ground-truth phosphorylation positions. Here, we present Iterative Synthetically Phosphorylated Isomers (iSPI), a proteome-scale library of human-derived phosphoserine-containing phosphopeptides that is inexpensive, regenerable, and diverse, with precisely known positions of phosphorylation. We demonstrate possible uses of iSPI, including use as a phosphopeptide standard, a tool to evaluate and optimize phosphorylation-site localization algorithms, and a benchmark to compare performance across data analysis pipelines. We also present AScorePro, an updated version of the AScore algorithm specifically optimized for phosphorylation-site localization in higher energy fragmentation spectra, and the FLR viewer, a web tool for phosphorylation-site localization, to enable community use of the iSPI resource. iSPI and its associated data constitute a useful, multi-purpose resource for the phosphoproteomics community.

SUBMITTER: Gassaway BM

PROVIDER: S-EPMC9847208 | biostudies-literature | 2022 Nov

REPOSITORIES: biostudies-literature

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A multi-purpose, regenerable, proteome-scale, human phosphoserine resource for phosphoproteomics.

Gassaway Brandon M BM Li Jiaming J Rad Ramin R Mintseris Julian J Mohler Kyle K Levy Tyler T Aguiar Mike M Beausoleil Sean A SA Paulo Joao A JA Rinehart Jesse J Huttlin Edward L EL Gygi Steven P SP

Nature methods 20221024 11

Mass-spectrometry-based phosphoproteomics has become indispensable for understanding cellular signaling in complex biological systems. Despite the central role of protein phosphorylation, the field still lacks inexpensive, regenerable, and diverse phosphopeptides with ground-truth phosphorylation positions. Here, we present Iterative Synthetically Phosphorylated Isomers (iSPI), a proteome-scale library of human-derived phosphoserine-containing phosphopeptides that is inexpensive, regenerable, an ...[more]

PMID: 36280721

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Dataset Information

A multi-purpose, regenerable, proteome-scale, human phosphoserine resource for phosphoproteomics.

Publications

A multi-purpose, regenerable, proteome-scale, human phosphoserine resource for phosphoproteomics.

Similar Datasets

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