Construction of protein phosphorylation networks by data mining, text mining and ontology integration: analysis of the spindle checkpoint.

ABSTRACT: Knowledge representation of the role of phosphorylation is essential for the meaningful understanding of many biological processes. However, such a representation is challenging because proteins can exist in numerous phosphorylated forms with each one having its own characteristic protein-protein interactions (PPIs), functions and subcellular localization. In this article, we evaluate the current state of phosphorylation event curation and then present a bioinformatics framework for the annotation and representation of phosphorylated proteins and construction of phosphorylation networks that addresses some of the gaps in current curation efforts. The integrated approach involves (i) text mining guided by RLIMS-P, a tool that identifies phosphorylation-related information in scientific lite

SUBMITTER: Ross KE 

PROVIDER: S-EPMC3675891 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature