PTMProphet: Fast and Accurate Mass Modification Localization for the Trans-Proteomic Pipeline.

ABSTRACT: Spectral matching sequence database search engines commonly used on mass spectrometry-based proteomics experiments excel at identifying peptide sequence ions, and in addition, possible sequence ions carrying post-translational modifications (PTMs), but most do not provide confidence metrics for the exact localization of those PTMs when several possible sites are available. Localization is absolutely required for downstream molecular cell biology analysis of PTM function in vitro and in vivo. Therefore, we developed PTMProphet, a free and open-source software tool integrated into the Trans-Proteomic Pipeline, which reanalyzes identified spectra from any search engine for which pepXML output is available to provide localization confidence to enable appropriate further characterization of bio

SUBMITTER: Shteynberg DD 

PROVIDER: S-EPMC6898736 | biostudies-literature | 2019 Dec

REPOSITORIES: biostudies-literature