DDBJ working on evaluation and classification of bacterial genes in INSDC - PubMed (original) (raw)
. 2007 Jan;35(Database issue):D13-5.
doi: 10.1093/nar/gkl908. Epub 2006 Nov 15.
Affiliations
- PMID: 17108353
- PMCID: PMC1669713
- DOI: 10.1093/nar/gkl908
DDBJ working on evaluation and classification of bacterial genes in INSDC
Hideaki Sugawara et al. Nucleic Acids Res. 2007 Jan.
Abstract
DNA Data Bank of Japan (DDBJ) (http://www.ddbj.nig.ac.jp) newly collected and released 12,927,184 entries or 13,787,688,598 bases in the period from July 2005 to June 2006. The released data contain honeybee expressed sequence tags (ESTs), re-examined and re-annotated complete genome data of Escherichia coli K-12 W3110, medaka WGS and human MGA. We also systematically evaluated and classified the genes in the complete bacterial genomes submitted to the International Nucleotide Sequence Database Collaboration (INSDC, http://insdc.org) that is composed of DDBJ, EMBL Bank and GenBank. The examination and classification selected 557,000 genes as reliable ones among all the bacterial genes predicted by us.
Figures
Figure 1
Classification of bacterial genes submitted to INSDC Four of the total six grades are presented. While ‘&’ means that the mutual coverage and homology between a predicted ORF and a gene in INSDC are both ≥70% in Blastp alignment, ‘or’ means that one-way coverage and homology between them are so.
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