| Restauro-G： A Rapid Genome Re-Annotation System for Comparative Genomics |
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| 作者姓名： | Tamaki S Arakawa K Kono N Tomita M |
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| 作者单位： | [1]Institute for Advanced Biosciences, Keio University, Fujisawa 252-8520, Japan [2]Department of Environmental Information, Keio University, Fujisawa 252-8520, Japan |
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| 基金项目： | Acknowledgements We thank the members of MGSP at the Institute for Advanced Biosciences, Keio University, for critical suggestions. This work was supported by the Japan Society for the Promotion of Science （JSPS）. |
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| 摘 要： | of complete genome sequences submitted directly from sequencing projects are diverse in terms of annotation strategies and update frequencies. These inconsistencies make comparative studies difficult. To allow rapid data preparation of a large number of complete genomes, automation and speed are important for genome re-annotation. Here we introduce an open-source rapid genome re-annotation software system, Restauro-G, specialized for bacterial genomes. Restauro-G re-annotates a genome by similarity searches utilizing the BLASTLike Alignment Tool, referring to protein databases such as UniProt KB, NCBI nr, NCBI COGs, Pfam, and PSORTb. Re-annotation by Restauro-G achieved over 98% accuracy for most bacterial chromosomes in comparison with the original manually curated annotation of EMBL releases. Restauro-G was developed in the generic bioinformatics workbench G-language Genome Analysis Environment and is distributed at http：//restauro-g.iab.keio.ac.jp/ under the GNU General Public License.
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| 关 键 词： | 生物信息学 基因组学 基因分析 基因解释系统 |
Restauro-G: a rapid genome re-annotation system for comparative genomics |
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| Tamaki S,Arakawa K,Kono N,Tomita M.Restauro-G: a rapid genome re-annotation system for comparative genomics[J].Genomics Proteomics & Bioinformatics,2007,5(1):53-58. |
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| Authors: | Tamaki Satoshi Arakawa Kazuharu Kono Nobuaki Tomita Masaru |
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| Institution: | Institute for Advanced Biosciences, Keio University, Fujisawa 252-8520, Japan. |
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| Abstract: | Annotations of complete genome sequences submitted directly from sequencing projects are diverse in terms of annotation strategies and update frequencies. These inconsistencies make comparative studies difficult. To allow rapid data preparation of a large number of complete genomes, automation and speed are important for genome re-annotation. Here we introduce an open-source rapid genome re-annotation software system, Restauro-G, specialized for bacterial genomes. Restauro-G re-annotates a genome by similarity searches utilizing the BLAST-Like Alignment Tool, referring to protein databases such as UniProt KB, NCBI nr, NCBI COGs, Pfam, and PSORTb. Re-annotation by Restauro-G achieved over 98% accuracy for most bacterial chromosomes in comparison with the original manually curated annotation of EMBL releases. Restauro-G was developed in the generic bioinformatics workbench G-language Genome Analysis Environment and is distributed at http://restauro-g.iab.keio.ac.jp/ under the GNU General Public License. |
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| Keywords: | bioinformatics software annotation G-language Genome Analysis Environment complete genomes Comparative Genomics System Genome General Public License generic bioinformatics workbench Analysis Environment and distributed accuracy bacterial chromosomes comparison original EMBL releases NCBI |
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