Current Bioinformatics

Yi-Ping Phoebe Chen
Department of Computer Science and Information Technology
La Trobe University
Melbourne
Australia

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Computer-Assisted Automatic Classifications, Storage, Queries and Functional Assignments of Orthologs and In-Paralogs Proteins

Author(s): David Thybert, Stephane Avner, Celine Lucchetti-Miganeh, Frederique Barloy-Hubler.

Abstract:

The automatic classification of proteins into groups is one of the major objectives for mining the increasing amount of data released by genomic and metagenomic sequencing projects. Ortholog and in-paralog accurate classification is motivated by the notion of descriptive biology. Facing the tremendous quantity of very complex protein datasets, one way to understand biological function, structure conservation as well as evolution history is to associate or group them into classes according to their sequence homology, function, folding motifs and structural features. In this review, we will explore and compare the different approaches and databases of automatic clustering and classification developed in the last years. We will also discuss the impact of hierarchies and clusters of proteins to protein function and phylogeny predictions.

Keywords: Clustering, classification, ortholog, in-paralog, database

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Article Details

VOLUME: 4
ISSUE: 2
Year: 2009
Page: [129 - 140]
Pages: 12
DOI: 10.2174/157489309788184800
Price: $58