The DOI matches its Crossref record; 4 of the 4 references it cites were found in a registry or an index.
KAAS: an automatic genome annotation and pathway reconstruction server
Open accessAbstract
The number of complete and draft genomes is rapidly growing in recent years, and it has become increasingly important to automate the identification of functional properties and biological roles of genes in these genomes. In the KEGG database, genes in complete genomes are annotated with the KEGG orthology (KO) identifiers, or the K numbers, based on the best hit information using Smith-Waterman scores as well as by the manual curation. Each K number represents an ortholog group of genes, and it is directly linked to an object in the KEGG pathway map or the BRITE functional hierarchy. Here, we have developed a web-based server called KAAS (KEGG Automatic Annotation Server: http://www.genome.jp/kegg/kaas/) i.e. an implementation of a rapid method to automatically assign K numbers to genes in the genome, enabling reconstruction of KEGG pathways and BRITE hierarchies. The method is based on sequence similarities, bi-directional best hit information and some heuristics, and has achieved a high degree of accuracy when compared with the manually curated KEGG GENES database.
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Altschul, S. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.17.3389 · Cited by 73,302
Gene Ontology: tool for the unification of biology
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Minimap2: Pairwise alignment for nucleotide sequences
Li, H. (2018) · Bioinformatics · doi:10.1093/bioinformatics/bty191 · Cited by 14,807
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Self-citationKofamKOALA: KEGG ortholog assignment based on profile HMM and adaptive score threshold
Aramaki, T., Blanc-Mathieu, R., Endo, H., Ohkubo, K., Kanehisa, M., Goto, S., & Ogata, H. (2019) · doi:10.1101/602110 · Cited by 2,054
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High-throughput generation, optimization and analysis of genome-scale metabolic models
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Metadata
- Authors
- Moriya, Y., Itoh, M., Okuda, S., Yoshizawa, A. C., & Kanehisa, M.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2007-05-08
- Volume
- 35
- Issue
- Web Server
- Pages
- W182-W185
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- OpenAlex
- W2133579817
- Cited by
- 4,153
- References
- 4
- FWCI
- 9.10
- Type
- journal article
- Language
- en
- Open access
- gold
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- Moriya, Y., Itoh, M., Okuda, S., Yoshizawa, A. C., & Kanehisa, M. (2007). KAAS: an automatic genome annotation and pathway reconstruction server. Nucleic Acids Research. https://doi.org/10.1093/nar/gkm321
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