Title: Data mining pathogen genomes using GeneOrder and CoreGenes and CGUG: gene order, synteny and in silico proteomes

Authors: Padmanabhan Mahadevan, John F. King, Donald Seto

Addresses: Department of Biological Sciences, Vanderbilt University, Nashville, TN 37235, USA. ' Kingdomain Corporation, 10305 Nantucket Court, Fairfax, VA 22032, USA. ' Department of Bioinformatics and Computational Biology, George Mason University, 10900 University Blvd., MSN 5B3, Manassas, VA 20110, USA

Abstract: Sequence databases are growing exponentially due to |next generation| DNA analysers and applications of these data. Databases include multiple sequences of previously sequenced organisms, particularly ones of consequence to human health. Applications are limited by tools available to mine them, particularly user-friendly tools that are useful for bench researchers. GeneOrder, CoreGenes and CGUG are web-based |on-the-fly| tools that examine gene order and synteny, as well as proteomes for comparative genomics and for drug discovery and design targets. CoreGenes (CGUG) now allows analysis of genomes ranging up to 1.9 megabases. Many of these small genome bacteria have impacts on human health.

Keywords: data mining: pathogen genomes; GeneOrder; CoreGenes; CGUG; CoreGenesUniqueGenes; in silico analysis; gene order; synteny; DNA sequences; proteomes; comparative genomics; drug discovery; drug design.

DOI: 10.1504/IJCBDD.2009.027586

International Journal of Computational Biology and Drug Design, 2009 Vol.2 No.1, pp.100 - 114

Published online: 02 Aug 2009 *

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