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BlastKOALA and GhostKOALA: KEGG Tools for Functional Characterization of Genome and Metagenome Sequences
Open accessAbstract
BlastKOALA and GhostKOALA are automatic annotation servers for genome and metagenome sequences, which perform KO (KEGG Orthology) assignments to characterize individual gene functions and reconstruct KEGG pathways, BRITE hierarchies and KEGG modules to infer high-level functions of the organism or the ecosystem. Both servers are made freely available at the KEGG Web site (http://www.kegg.jp/blastkoala/). In BlastKOALA, the KO assignment is performed by a modified version of the internally used KOALA algorithm after the BLAST search against a non-redundant dataset of pangenome sequences at the species, genus or family level, which is generated from the KEGG GENES database by retaining the KO content of each taxonomic category. In GhostKOALA, which utilizes more rapid GHOSTX for database search and is suitable for metagenome annotation, the pangenome dataset is supplemented with Cd-hit clusters including those for viral genes. The result files may be downloaded and manipulated for further KEGG Mapper analysis, such as comparative pathway analysis using multiple BlastKOALA results.
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Cites
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Cited by
KEGG: new perspectives on genomes, pathways, diseases and drugs
Kanehisa, M., Furumichi, M., Tanabe, M., Sato, Y., & Morishima, K. (2017) · Nucleic Acids Research · doi:10.1093/nar/gkw1092 · Cited by 8,865
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
Self-citationA new genomic blueprint of the human gut microbiota
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KEGG mapping tools for uncovering hidden features in biological data
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Self-citationTempo and Mode of Genome Evolution in the Budding Yeast Subphylum
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Metadata
- Authors
- Kanehisa, M., Sato, Y., & Morishima, K.
- Venue
- Journal of Molecular Biology
- Publisher
- Elsevier BV
- Published
- 2016-02
- Volume
- 428
- Issue
- 4
- Pages
- 726-731
- ISSN
- 0022-2836 (ISSN-L)
- OpenAlex
- W2178043251
- Cited by
- 4,055
- References
- 1
- FWCI
- 44.00
- Type
- journal article
- Language
- en
- Open access
- hybrid
- Licence
- www.elsevier.com/tdm/userlicense/1.0/ (tdm)
- creativecommons.org/licenses/by-nc-nd/4.0/ (vor)
- Funders
- National Bioscience Database Center of the Japan Science and Technology Agency
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- Kanehisa, M., Sato, Y., & Morishima, K. (2016). BlastKOALA and GhostKOALA: KEGG Tools for Functional Characterization of Genome and Metagenome Sequences. Journal of Molecular Biology. https://doi.org/10.1016/j.jmb.2015.11.006
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