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BMC Bioinformatics

, 9:299

First Online: 02 July 2008Received: 18 February 2008Accepted: 02 July 2008


BackgroundPseudogenes, nonfunctional copies of genes, evolve fast due the lack of evolutionary pressures and thus appear in several different forms. PseudoGeneQuest is an online tool to search the human genome for a given query sequence and to identify different types of pseudogenes as well as novel genes and gene fragments.

DescriptionThe service can detect pseudogenes, that have arisen either by retrotransposition or segmental genome duplication, many of which are not listed in the public pseudogene databases. The service has a user-friendly web interface and uses a powerful computer cluster in order to perform parallel searches and provide relatively fast runtimes despite exhaustive database searches and analyses.

ConclusionPseudoGeneQuest is a versatile tool for detecting novel pseudogene candidates from the human genome. The service searches human genome sequences for five types of pseudogenes and provides an output that allows easy further analysis of observations. In addition to the result file the system provides visualization of the results linked to Ensembl Genome Browser. PseudoGeneQuest service is freely available.

Electronic supplementary materialThe online version of this article doi:10.1186-1471-2105-9-299 contains supplementary material, which is available to authorized users.

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Autor: Csaba Ortutay - Mauno Vihinen


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