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Nucleic Acids Research Advance Access published online on November 5, 2008
Nucleic Acids Research, doi:10.1093/nar/gkn813
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© 2008 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Database Issue

EVOG: a database for evolutionary analysis of overlapping genes

Dae-Soo Kim1, Chi-Young Cho2, Jae-Won Huh3, Heui-Soo Kim4 and Hwan-Gue Cho2,*

1Korean BioInformation Center (KOBIC), KRIBB, Daejeon 305-806, 2School of Computer Science and Engineering, College of Engineering, Pusan National University, Busan 609-735, Korea, 3National Primate Research Center (NPRC), KRIBB, Ochang, Chungbuk 363-883, Republic of Korea and 4Division of Biological Sciences, College of Natural Sciences, Pusan National University, Busan 609-735, Korea

*To whom correspondence should be addressed. Tel: +82 51 510 2283; Fax: +82 51 515 2208; Email: hgcho{at}pusan.ac.kr Correspondence may also be addressed to Heui-Soo Kim. Email: khs307{at}pusan.ac.kr

Received August 14, 2008. Accepted October 10, 2008.

Overlapping genes are defined as a pair of genes whose transcripts are overlapped. Recently, many cases of overlapped genes have been investigated in various eukaryotic organisms; however, their origin and transcriptional control mechanism has not yet been clearly determined. In this study, we implemented evolutionary visualizer for overlapping genes (EVOG), a Web-based DB with a novel visualization interface, to investigate the evolutionary relationship between overlapping genes. Using this technique, we collected and analyzed all overlapping genes in human, chimpanzee, orangutan, marmoset, rhesus, cow, dog, mouse, rat, chicken, Xenopus, zebrafish and Drosophila. This integrated database provides a manually curated database that displays the evolutionary features of overlapping genes. The EVOG DB components included a number of overlapping genes (10{per ten thousand}074 in human, 10 {per ten thousand}009 in chimpanzee, 67 {per ten thousand}039 in orangutan, 51 001 in marmoset, 219 in rhesus, 3627 in cow, 209 in dog, 10 {per ten thousand}700 in mouse, 7987 in rat, 1439 in chicken, 597 in Xenopus, 2457 in zebrafish and 4115 in Drosophila). The EVOG database is very effective and easy to use for the analysis of the evolutionary process of overlapping genes when comparing different species. Therefore, EVOG could potentially be used as the main tool to investigate the evolution of the human genome in relation to disease by comparing the expression profiles of overlapping genes. EVOG is available at http://neobio.cs.pusan.ac.kr/evog/.

The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors


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