NDLI: Detection of Gene Orthology Based on Protein-Protein Interaction Networks

Content Provider	IEEE Xplore Digital Library
Author	Towfic, F. Greenlee, M.H.W. Honavar, V.
Copyright Year	2009
Abstract	Ortholog detection methods present a powerful approach for finding genes that participate in similar biological processes across different organisms, extending our understanding of interactions between genes across different pathways, and understanding the evolution of gene families. We exploit features derived from the alignment of protein-protein interaction networks to reconstruct KEGG orthologs for Drosophila melanogaster, Saccharomyces cerevisiae, Mus musculus and Homo sapiens protein-protein interaction networks extracted from the DIP repository for protein-protein interaction data using the decision tree, Naive-Bayes and Support Vector Machine classification algorithms. The performance of our classifiers in reconstructing KEGG orthologs is compared against a basic reciprocal BLAST hit approach. We provide implementations of the resulting algorithms as part of BiNA, an open source biomolecular network alignment toolkit.
Starting Page	48
Ending Page	53
File Size	398085
Page Count	6
File Format	PDF
ISBN	9780769538853
DOI	10.1109/BIBM.2009.85
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2009-11-01
Publisher Place	USA
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	ortholog detection Genomics Organisms Phylogeny graph alignment Proteins Evolution (biology) network comparison Biological processes Support vector machine classification Decision trees Bioinformatics Electronics packaging
Content Type	Text
Resource Type	Article

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