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Combining biomedical knowledge and transcriptomic data to extract new knowledge on genes

Guérin, Emilie ; Marquet, Gwenaëlle ; Chabalier, Julie ; Troadec, Marie-Bérengère ; Guguen-Guillouzo, Christiane ; Loréal, Olivier ; Burgun, Anita ; Moussouni, Fouzia

Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516)


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Abstract:
In biomedical research, interpretation of microarray data requires confrontation of data and knowledge from heterogeneous resources, either in the biomedical domain or in genomics, as well as restitution and analysis methods adapted to huge amounts of data. We present a combined approach that relies on two components: BioMeKE annotates sets of genes using biomedical GO and UMLS concepts, and GEDAW, a Gene Expression Data Warehouse, uses BioMeKE to enrich experimental results with biomedical concepts, thus performing complex analyses of expression measurements through analysis workflows. The strength of our approach has been demonstrated within the framework of analysis of data resulting from the liver transcriptome study. It allowed new genes potentially associated with liver diseases to be highlighted.


Institution: Faculty of Technology, Research Groups in Informatics
DDC classification: Data processing, computer science, computer systems

Suggested Citation:
Guérin, Emilie ; Marquet, Gwenaëlle ; Chabalier, Julie ; Troadec, Marie-Bérengère ; Guguen-Guillouzo, Christiane ; Loréal, Olivier ; Burgun, Anita ; Moussouni, Fouzia  (2006)  Combining biomedical knowledge and transcriptomic data to extract new knowledge on genes. Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516), 3(2), 2006. Special Issue: 3rd Integrative Bioinformatics Workshop, Harpenden, United Kingdom, 2

Online-Journal: http://journal.imbio.de/index.php?paper_id=35
URL: http://biecoll.ub.uni-bielefeld.de/volltexte/2007/216

Also published by Shaker:
Ralf Hofestädt, Thoralf Töpel (eds.). Integrative Bioinformatics -
Yearbook 2006. Shaker, 2007.


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