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PubMed · 14663967

BioMeKe: an ontology-based biomedical knowledge extraction system devoted to transcriptome analysis.

Gwenaëlle Marquet·Anita Burgun·Fouzia Moussouni·Emilie Guérin·Franck Le Duff·Olivier Loréal
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Abstract

Semantic interoperability between knowledge bases in medicine, and knowledge base in genomics and molecular biology will lead to advances in fundamental research as well as to improved patient care. DNA chips strategy is used for transcriptome analysis in order to identify deregulated genes in physio-pathological conditions. The objective of the BioMedical Knowledge Extraction project (BioMeKe) is to develop a knowledge warehouse in the context of transcriptome analysis during liver diseases. Knowledge sources include ontologies, related terminologies and annotations linked towards public databases (e.g., SWISSPROT). BioMeKe has been developed to have access to information using systematic investigation upon a concept, gene, gene products, pathology, or any target keyword, and is based on the combination of several relevant resources: UMLS, GeneOntology, MeSH supplementary terms, GOA, and HUGO. Current efforts are focusing on exploiting this ontology-based Knowledge Extractor, to enrich the expression data on genes delivered by a liver specific DNA microarray for better assistance of analysis.

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Databases, GeneticHumansInformation Storage and RetrievalMedical Informatics ApplicationsMolecular BiologyRNA, MessengerUnified Medical Language SystemJournal Article

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Gwenaëlle Marquet, Anita Burgun, Fouzia Moussouni, Emilie Guérin, Franck Le Duff, Olivier Loréal. 2003. BioMeKe: an ontology-based biomedical knowledge extraction system devoted to transcriptome analysis.. https://pubmed.ncbi.nlm.nih.gov/14663967/

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