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KAAS specifications


Unique identifier OMICS_09234
Alternative name KEGG Automatic Annotation Server
Interface Web user interface
Restrictions to use None
Input data On this server, the user can input the FASTA formatted ORFs or ESTs. The expected query data is amino acid sequences representing a set of protein-coding genes in a complete genome to annotate with high accuracy.
Output data The KAAS provides three views of the analyzed data. ‘KO list’ is the flat list of query genes with the K numbers given by the KAAS. ‘KO hierarchy’ is the hierarchical list of annotated genes, which is categorized according to the BRITE database. ‘Pathway map’ is the list of pathways with links to graphical pathway maps. The annotated query genes are highlighted in the maps. Each box in the map is linked to functional information in the KO database.
Computer skills Basic
Stability Stable
Maintained Yes

Publication for KEGG Automatic Annotation Server

KAAS citations


First comprehensive analysis of lysine acetylation in Alvinocaris longirostris from the deep sea hydrothermal vents

BMC Genomics
PMCID: 5946511
PMID: 29747590
DOI: 10.1186/s12864-018-4745-3

[…] ptome of A. longirostris. The item with a corrected p-value < 0.05 was considered significant. Further, KEGG (Kyoto Encyclopedia of Genes and Genomes; http://www.genome.jp/kegg/) online service tools KAAS was utilized to predict the pathways in which the acetylated proteins were involved. Then the annotation results were mapped on the KEGG pathway database using KEGG mapper. These pathways were al […]


The aquatic animals’ transcriptome resource for comparative functional analysis

BMC Genomics
PMCID: 5954267
PMID: 29764375
DOI: 10.1186/s12864-018-4463-x

[…] to the Gene Ontology database. We also extracted the open reading frames (ORFs) from all genes according to the best BLASTX match hit results. To identify genes involved in KEGG pathway, we used the KEGG Automatic Annotation Server, KAAS []. Finally, we identified the putative protein domains on translated protein sequences extracted from genes by aligning to CDD (conserved domain and protein cla […]


Transcriptomic analysis of crustacean molting gland (Y organ) regulation via the mTOR signaling pathway

Sci Rep
PMCID: 5943448
PMID: 29743490
DOI: 10.1038/s41598-018-25368-x

[…] sect-specific.fasta was blasted against the KEGG annotations to the Kyoto Encyclopedia for Genes and Genomes (KEGG) pathways and KEGG orthology (KO) (http://www.genome.jp/kegg/ko.html) databases. The KEGG Automatic Annotation Server (KAAS) software (http://www.genome.jp/tools/kaas/) was used to obtain KO numbers to create a summary of the KO terms associated with annotated transcripts in the YO/I/ […]


Identification of novel drug targets in bovine respiratory disease: an essential step in applying biotechnologic techniques to develop more effective therapeutic treatments

Drug Des Devel Ther
PMCID: 5944452
PMID: 29765203
DOI: 10.2147/DDDT.S163476

[…] KAAS: the 107 common prioritized drug targets were analyzed using KAAS for pathway analyses, which revealed 62 pathway annotations. The distribution of these 107 proteins into different pathways is pr […]


Comparative transcriptomic analysis identifies genes responsible for fruit count and oil yield in the oil tea plant Camellia chekiangoleosa

Sci Rep
PMCID: 5923238
PMID: 29703942
DOI: 10.1038/s41598-018-24073-z

[…] 1E-5, and against the Pfam database with HMMER3. Based on all annotation IDs from UniProtKB, GO terms were retrieved from the Gene Ontology database. The pathway k number mapping was conducted using KEGG Automatic Annotation Server (KAAS, version 2.1), and pathway enrichment (hypergeometric test, p < 0.05 and q < 0.05) was conducted against Arabidopsis using KOBAS (version 3.0). Transcription fac […]


Genome centric metatranscriptomes and ecological roles of the active microbial populations during cellulosic biomass anaerobic digestion

Biotechnol Biofuels
PMCID: 5911951
PMID: 29713376
DOI: 10.1186/s13068-018-1121-0

[…] [], COG (2003-205) [] and NCBI non-redundant (retrieved 26 July 2016) databases using DIAMOND [] with a minimum identity of 40%. ORF KEGG annotations were obtained by submitting ORF sequences to the KEGG Automatic Annotation Server []. Carbohydrate-active enzymes (CAZymes) [] and the putative protein domains were identified by searching the ORFs against the hidden Markov model (HMM) profiles of C […]


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KAAS institution(s)
Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto, Japan
KAAS funding source(s)
This work was supported by grants from the Ministry of Education, Culture, Sports, Science and Technology, and the Japan Science and Technology Agency.

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