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Assessment of genome annotation using gene function similarity within the gene neighborhood.


ABSTRACT: Functional annotation of bacterial genomes is an obligatory and crucially important step of information processing from the genome sequences into cellular mechanisms. However, there is a lack of computational methods to evaluate the quality of functional assignments.We developed a genome-scale model that assigns Bayesian probability to each gene utilizing a known property of functional similarity between neighboring genes in bacteria.Our model clearly distinguished true annotation from random annotation with Bayesian annotation probability >0.95. Our model will provide a useful guide to quantitatively evaluate functional annotation methods and to detect gene sets with reliable annotations.

SUBMITTER: Jun SR 

PROVIDER: S-EPMC5517811 | biostudies-literature | 2017 Jul

REPOSITORIES: biostudies-literature

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Assessment of genome annotation using gene function similarity within the gene neighborhood.

Jun Se-Ran SR   Nookaew Intawat I   Hauser Loren L   Gorin Andrey A  

BMC bioinformatics 20170719 1


<h4>Background</h4>Functional annotation of bacterial genomes is an obligatory and crucially important step of information processing from the genome sequences into cellular mechanisms. However, there is a lack of computational methods to evaluate the quality of functional assignments.<h4>Results</h4>We developed a genome-scale model that assigns Bayesian probability to each gene utilizing a known property of functional similarity between neighboring genes in bacteria.<h4>Conclusions</h4>Our mod  ...[more]

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