Method for Independent Estimation of the False Localization Rate for Phosphoproteomics.

ABSTRACT: Phosphoproteomic methods are commonly employed to identify and quantify phosphorylation sites on proteins. In recent years, various tools have been developed, incorporating scores or statistics related to whether a given phosphosite has been correctly identified or to estimate the global false localization rate (FLR) within a given data set for all sites reported. These scores have generally been calibrated using synthetic datasets, and their statistical reliability on real datasets is largely unknown, potentially leading to studies reporting incorrectly localized phosphosites, due to inadequate statistical control. In this work, we develop the concept of scoring modifications on a decoy amino acid, that is, one that cannot be modified, to allow for independent estimation of global FLR. We

SUBMITTER: Ramsbottom KA 

PROVIDER: S-EPMC9251759 | biostudies-literature | 2022 Jul

REPOSITORIES: biostudies-literature