Using language models and ontology topology to perform semantic mapping of traits between biomedical datasets.

ABSTRACT:

Motivation

Human traits are typically represented in both the biomedical literature and large population studies as descriptive text strings. Whilst a number of ontologies exist, none of these perfectly represent the entire human phenome and exposome. Mapping trait names across large datasets is therefore time-consuming and challenging. Recent developments in language modelling have created new methods for semantic representation of words and phrases, and these methods offer new opportunities to map human trait names in the form of words and short phrases, both to ontologies and to each other. Here, we present a comparison between a range of established and more recent language modelling approaches for the task of mapping trait names from UK Biobank to the Experimental Factor Ontol

SUBMITTER: Liu Y 

PROVIDER: S-EPMC10097433 | biostudies-literature | 2023 Apr

REPOSITORIES: biostudies-literature