Generating explanations for biomedical queries

Generating explanations for biomedical queries

We introduce novel mathematical models and algorithms to generate (shortest or k different) explanations for biomedical queries, using answer set programming. We implement these algorithms and integrate them in BioQuery-ASP. We illustrate the usefulness of these methods with some complex biomedical...

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Veröffentlicht in:Theory and practice of logic programming 2015-01, Vol.15 (1), p.35-78
Hauptverfasser: ERDEM, ESRA, OZTOK, UMUT
Format: Artikel
Sprache:eng
Schlagworte:
Algorithms
Drugs
Logic programming
Mathematical models
Programming
Queries
Regular Papers
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Zusammenfassung:We introduce novel mathematical models and algorithms to generate (shortest or k different) explanations for biomedical queries, using answer set programming. We implement these algorithms and integrate them in BioQuery-ASP. We illustrate the usefulness of these methods with some complex biomedical queries related to drug discovery, over the biomedical knowledge resources PharmGKB, DrugBank, BioGRID, CTD, SIDER, Disease Ontology, and Orphadata.
ISSN:1471-0684
1475-3081
DOI:10.1017/S1471068413000598