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GeneBrowser: an approach for integration and functional classification of genomic data

Arrais, Joel ; Santos, Bruno ; Fernandes, João ; Carreto, Laura ; Santos, Manuel A. S. ; Oliveira, José Luis

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


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Abstract:
The aim of any high-throughput technique for genome analysis is to provide a direct link between the data produced and the hypothesis that originated the experiment. And so, tools for functional mRNA profiling and for gene information integration have become essential to this task. We have developed GeneBrowser as a novel approach to data analysis combining advantages of mRNA profiling tools of genome-scale experiments with others provided by data integration systems. At the moment the system provides functional annotations using Gene Ontology, Entrez Gene, KEGG Orthology and KEGG Pathways, including, also, relevant bibliography relative to the set of genes used. In addition GeneBrowser combines functional annotations displayed in graphic bars allowing the user to easily detect significant gene expression changes in each functional category. The system also allows navigating through the Gene Ontology tree to find how many genes are present in each node. The result is a comprehensive and easy to use web application that helps researchers to extract knowledge from large data sets and speeds up discovery processes. Availability: GeneBrowser is freely available at: http://bioinformatics.ua.pt/genebrowser


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

Suggested Citation:
Arrais, Joel ; Santos, Bruno ; Fernandes, João ; Carreto, Laura ; Santos, Manuel A. S. ; Oliveira, José Luis  (2007)  GeneBrowser: an approach for integration and functional classification of genomic data. Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516), 4(3), 2007. Special Issue: 4th Integrative Bioinformatics Workshop, Gent, Belgium

Online-Journal: http://journal.imbio.de/index.php?paper_id=82
URL: http://biecoll.ub.uni-bielefeld.de/volltexte/2007/262



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