Phosphoproteomics data-driven signalling network inference: Does it work?

ABSTRACT: The advent of global phosphoproteome profiling has led to wide phosphosite coverage and therefore the opportunity to predict kinase-substrate associations from these datasets. However, the regulatory kinase is unknown for most substrates, due to biased and incomplete database annotations. In this study we compare the performance of six pairwise measures to predict kinase-substrate associations using a data driven approach on publicly available time resolved and perturbation mass spectrometry-based phosphoproteome data. First, we validated the performance of these measures using as a reference both a literature-based phosphosite-specific protein interaction network and a predicted kinase-substrate (KS) interactions set. The overall performance in predicting kinase-substrate associations usi

SUBMITTER: Sriraja LO 

PROVIDER: S-EPMC9798138 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature