Menagerie: A text-mining tool to support animal-human translation in neurodegeneration research.

ABSTRACT: Discovery studies in animals constitute a cornerstone of biomedical research, but suffer from lack of generalizability to human populations. We propose that large-scale interrogation of these data could reveal patterns of animal use that could narrow the translational divide. We describe a text-mining approach that extracts translationally useful data from PubMed abstracts. These comprise six modules: species, model, genes, interventions/disease modifiers, overall outcome and functional outcome measures. Existing National Library of Medicine natural language processing tools (SemRep, GNormPlus and the Chemical annotator) underpin the program and are further augmented by various rules, term lists, and machine learning models. Evaluation of the program using a 98-abstract test set achieved F

SUBMITTER: Zeiss CJ 

PROVIDER: S-EPMC6917268 | biostudies-literature | 2019

REPOSITORIES: biostudies-literature