BEACON: automated tool for Bacterial GEnome Annotation ComparisON
KAUST DepartmentComputational Bioscience Research Center (CBRC)
Computer Science Program
Applied Mathematics and Computational Science Program
Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
Online Publication Date2015-08-18
Print Publication Date2015-12
Permanent link to this recordhttp://hdl.handle.net/10754/575255
MetadataShow full item record
AbstractBackground Genome annotation is one way of summarizing the existing knowledge about genomic characteristics of an organism. There has been an increased interest during the last several decades in computer-based structural and functional genome annotation. Many methods for this purpose have been developed for eukaryotes and prokaryotes. Our study focuses on comparison of functional annotations of prokaryotic genomes. To the best of our knowledge there is no fully automated system for detailed comparison of functional genome annotations generated by different annotation methods (AMs). Results The presence of many AMs and development of new ones introduce needs to: a/ compare different annotations for a single genome, and b/ generate annotation by combining individual ones. To address these issues we developed an Automated Tool for Bacterial GEnome Annotation ComparisON (BEACON) that benefits both AM developers and annotation analysers. BEACON provides detailed comparison of gene function annotations of prokaryotic genomes obtained by different AMs and generates extended annotations through combination of individual ones. For the illustration of BEACON’s utility, we provide a comparison analysis of multiple different annotations generated for four genomes and show on these examples that the extended annotation can increase the number of genes annotated by putative functions up to 27 %, while the number of genes without any function assignment is reduced. Conclusions We developed BEACON, a fast tool for an automated and a systematic comparison of different annotations of single genomes. The extended annotation assigns putative functions to many genes with unknown functions. BEACON is available under GNU General Public License version 3.0 and is accessible at: http://www.cbrc.kaust.edu.sa/BEACON/
CitationBEACON: automated tool for Bacterial GEnome Annotation ComparisON 2015, 16 (1) BMC Genomics
RelationsIs Supplemented By:
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- High-throughput comparison, functional annotation, and metabolic modeling of plant genomes using the PlantSEED resource.
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- Issue date: 2014 Jul 1
- Genome Annotation Transfer Utility (GATU): rapid annotation of viral genomes using a closely related reference genome.
- Authors: Tcherepanov V, Ehlers A, Upton C
- Issue date: 2006 Jun 13
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