Large-scale protein-protein post-translational modification extraction with distant supervision and confidence calibrated BioBERT.

ABSTRACT:

Motivation

Protein-protein interactions (PPIs) are critical to normal cellular function and are related to many disease pathways. A range of protein functions are mediated and regulated by protein interactions through post-translational modifications (PTM). However, only 4% of PPIs are annotated with PTMs in biological knowledge databases such as IntAct, mainly performed through manual curation, which is neither time- nor cost-effective. Here we aim to facilitate annotation by extracting PPIs along with their pairwise PTM from the literature by using distantly supervised training data using deep learning to aid human curation.

Method

We use the IntAct PPI database to create a distant supervised dataset annotated with interacting protein pairs, their corresponding PTM type, a

SUBMITTER: Elangovan A 

PROVIDER: S-EPMC8729035 | biostudies-literature | 2022 Jan

REPOSITORIES: biostudies-literature