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Thesaurus: quantifying phosphopeptide positional isomers.

ABSTRACT: Proteins can be phosphorylated at neighboring sites resulting in different functional states, and studying the regulation of these sites has been challenging. Here we present Thesaurus, a search engine that detects and quantifies phosphopeptide positional isomers from parallel reaction monitoring and data-independent acquisition mass spectrometry experiments. We apply Thesaurus to analyze phosphorylation events in the PI3K/AKT signaling pathway and show neighboring sites with distinct regulation.

SUBMITTER: Searle BC 

PROVIDER: S-EPMC7012383 | biostudies-literature | 2019 Aug

REPOSITORIES: biostudies-literature

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Thesaurus: quantifying phosphopeptide positional isomers.

Searle Brian C BC   Lawrence Robert T RT   MacCoss Michael J MJ   Villén Judit J  

Nature methods 20190729 8

Proteins can be phosphorylated at neighboring sites resulting in different functional states, and studying the regulation of these sites has been challenging. Here we present Thesaurus, a search engine that detects and quantifies phosphopeptide positional isomers from parallel reaction monitoring and data-independent acquisition mass spectrometry experiments. We apply Thesaurus to analyze phosphorylation events in the PI3K/AKT signaling pathway and show neighboring sites with distinct regulation  ...[more]

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