e-Fungi: a data resource for comparative analysis of fungal genomes

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e-Fungi: a data resource for comparative analysis of fungal genomes

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dc.contributor.author Hedeler, Cornelia en_GB
dc.contributor.author Wong, Han Min en_GB
dc.contributor.author Cornell, Michael J. en_GB
dc.contributor.author Alam, Intikhab en_GB
dc.contributor.author Soanes, Darren M en_GB
dc.contributor.author Rattray, Magnus en_GB
dc.contributor.author Hubbard, Simon J. en_GB
dc.contributor.author Talbot, Nicholas J. en_GB
dc.contributor.author Oliver, Stephen G. en_GB
dc.contributor.author Paton, Norman W. en_GB
dc.contributor.department University of Exeter en_GB
dc.date.accessioned 2008-09-28T22:02:38Z en_GB
dc.date.accessioned 2011-01-25T11:46:51Z en_US
dc.date.accessioned 2013-03-20T14:47:30Z
dc.date.issued 2007-11-20 en_GB
dc.description.abstract Background The number of sequenced fungal genomes is ever increasing, with about 200 genomes already fully sequenced or in progress. Only a small percentage of those genomes have been comprehensively studied, for example using techniques from functional genomics. Comparative analysis has proven to be a useful strategy for enhancing our understanding of evolutionary biology and of the less well understood genomes. However, the data required for these analyses tends to be distributed in various heterogeneous data sources, making systematic comparative studies a cumbersome task. Furthermore, comparative analyses benefit from close integration of derived data sets that cluster genes or organisms in a way that eases the expression of requests that clarify points of similarity or difference between species. Description To support systematic comparative analyses of fungal genomes we have developed the e-Fungi database, which integrates a variety of data for more than 30 fungal genomes. Publicly available genome data, functional annotations, and pathway information has been integrated into a single data repository and complemented with results of comparative analyses, such as MCL and OrthoMCL cluster analysis, and predictions of signaling proteins and the sub-cellular localisation of proteins. To access the data, a library of analysis tasks is available through a web interface. The analysis tasks are motivated by recent comparative genomics studies, and aim to support the study of evolutionary biology as well as community efforts for improving the annotation of genomes. Web services for each query are also available, enabling the tasks to be incorporated into workflows. Conclusion The e-Fungi database provides fungal biologists with a resource for comparative studies of a large range of fungal genomes. Its analysis library supports the comparative study of genome data, functional annotation, and results of large scale analyses over all the genomes stored in the database. The database is accessible at , as is the WSDL for the web services. en_GB
dc.identifier.citation BMC Genomics 2007 8:426 en_GB
dc.identifier.doi 10.1186/1471-2164-8-426 en_GB
dc.identifier.uri http://hdl.handle.net/10036/38245 en_GB
dc.language.iso en en_GB
dc.publisher BioMed Central en_GB
dc.relation.url http://www.biomedcentral.com/1471-2164/8/426 en_GB
dc.relation.url http://creativecommons.org/licenses/by/2.0 en_GB
dc.rights Copyright © 2007 Hedeler et al; licensee BioMed Central Ltd. en_GB
dc.title e-Fungi: a data resource for comparative analysis of fungal genomes en_GB
dc.type Article en_GB
dc.date.available 2007-11-20 en_GB
dc.date.available 2008-09-28T22:02:38Z en_GB
dc.date.available 2011-01-25T11:46:51Z en_US
dc.date.available 2013-03-20T14:47:30Z
dc.identifier.issn 1471-2164 en_GB
dc.identifier.journal BMC Genomics en_GB
dc.identifier.pmcid 2242804 en_GB
dc.identifier.pmid 18028535 en_GB

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