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mGene.web: a web service for accurate computational gene finding

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 additiona...

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Detalles Bibliográficos
Autores principales: Schweikert, Gabriele, Behr, Jonas, Zien, Alexander, Zeller, Georg, Ong, Cheng Soon, Sonnenburg, Sören, Rätsch, Gunnar
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2009
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2703990/
https://www.ncbi.nlm.nih.gov/pubmed/19494180
http://dx.doi.org/10.1093/nar/gkp479
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author Schweikert, Gabriele
Behr, Jonas
Zien, Alexander
Zeller, Georg
Ong, Cheng Soon
Sonnenburg, Sören
Rätsch, Gunnar
author_facet Schweikert, Gabriele
Behr, Jonas
Zien, Alexander
Zeller, Georg
Ong, Cheng Soon
Sonnenburg, Sören
Rätsch, Gunnar
author_sort Schweikert, Gabriele
collection PubMed
description 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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spelling pubmed-27039902009-07-01 mGene.web: a web service for accurate computational gene finding Schweikert, Gabriele Behr, Jonas Zien, Alexander Zeller, Georg Ong, Cheng Soon Sonnenburg, Sören Rätsch, Gunnar Nucleic Acids Res Articles 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). Oxford University Press 2009-07-01 2009-06-03 /pmc/articles/PMC2703990/ /pubmed/19494180 http://dx.doi.org/10.1093/nar/gkp479 Text en © 2009 The Author(s) http://creativecommons.org/licenses/by-nc/2.0/uk/ 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.
spellingShingle Articles
Schweikert, Gabriele
Behr, Jonas
Zien, Alexander
Zeller, Georg
Ong, Cheng Soon
Sonnenburg, Sören
Rätsch, Gunnar
mGene.web: a web service for accurate computational gene finding
title mGene.web: a web service for accurate computational gene finding
title_full mGene.web: a web service for accurate computational gene finding
title_fullStr mGene.web: a web service for accurate computational gene finding
title_full_unstemmed mGene.web: a web service for accurate computational gene finding
title_short mGene.web: a web service for accurate computational gene finding
title_sort mgene.web: a web service for accurate computational gene finding
topic Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2703990/
https://www.ncbi.nlm.nih.gov/pubmed/19494180
http://dx.doi.org/10.1093/nar/gkp479
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