Moriya Y, Itoh M, Okuda S, Yoshizawa AC, Kanehisa M.. KAAS: an automatic genome annotation and pathway reconstruction server. Nucl Ac Res 35: W182-W185

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 611-0011, Japan.
Nucleic Acids Research (Impact Factor: 9.11). 08/2007; 35(Web Server issue):W182-5. DOI: 10.1093/nar/gkm321
Source: PubMed


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: 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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    • "Gene ontology term enrichment was analysed by the GoPipe program using a BLASTP search against the Swiss-Prot and TrEMBL databases (Chen et al., 2005). KEGG pathway annotations were performed using the KEGG Automatic Annotation Server (KAAS) using the bidirectional best-hit information method (Moriya et al., 2007). "
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