Nucleic Acids Research Advance Access originally published online on June 3, 2009
Nucleic Acids Research 2009 37(Web Server issue):W312-W316; doi:10.1093/nar/gkp479
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Nucleic Acids Research, 2009, Vol. 37, No. suppl_2 W312-W316
© 2009 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.
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mGene.web: a web service for accurate computational gene finding
1Friedrich Miescher Laboratory, Max Planck Society, 2Department for Empirical Inference, Max Planck Institute for Biological Cybernetics, 3Department for Molecular Biology, Max Planck Institute for Developmental Biology Tübingen, Germany and 4Department for Intelligent Data Analysis, Fraunhofer Institute FIRST, Berlin, Germany
*To whom correspondence should be addressed. Tel: +49 7071 601 820; Fax: +49 7071 601 801; Email: gunnar.raetsch{at}tuebingen.mpg.de
Received March 5, 2009. Revised May 7, 2009. Accepted May 17, 2009.
We describe mGene.web, a web service for the genome-wide prediction of protein coding genes from eukaryotic DNA sequences. It offers pre-trained models for the recognition of gene structures including untranslated regions in an increasing number of organisms. With mGene.web, users have the additional possibility to train the system with their own data for other organisms on the push of a button, a functionality that will greatly accelerate the annotation of newly sequenced genomes. The system is built in a highly modular way, such that individual components of the framework, like the promoter prediction tool or the splice site predictor, can be used autonomously. The underlying gene finding system mGene is based on discriminative machine learning techniques and its high accuracy has been demonstrated in an international competition on nematode genomes. mGene.web is available at http://www.mgene.org/web, it is free of charge and can be used for eukaryotic genomes of small to moderate size (several hundred Mbp).
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  G. Schweikert, A. Zien, G. Zeller, J. Behr, C. Dieterich, C. S. Ong, P. Philips, F. De Bona, L. Hartmann, A. Bohlen, et al. mGene: Accurate SVM-based gene finding with an application to nematode genomes Genome Res., November 1, 2009; 19(11): 2133 - 2143. [Abstract] [Full Text] [PDF]
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