PEDL+: protein-centered relation extraction from PubMed at your fingertip.

ABSTRACT:

Summary

Relation extraction (RE) from large text collections is an important tool for database curation, pathway reconstruction, or functional omics data analysis. In practice, RE often is part of a complex data analysis pipeline requiring specific adaptations like restricting the types of relations or the set of proteins to be considered. However, current systems are either non-programmable web sites or research code with fixed functionality. We present PEDL+, a user-friendly tool for extracting protein-protein and protein-chemical associations from PubMed articles. PEDL+ combines state-of-the-art NLP technology with adaptable ranking and filtering options and can easily be integrated into analysis pipelines. We evaluated PEDL+ in two pathway curation projects and found that 59% t

SUBMITTER: Weber L 

PROVIDER: S-EPMC10660277 | biostudies-literature | 2023 Nov

REPOSITORIES: biostudies-literature