Table 2.

Examples of queries against KEGG

Query data	Procedure
Genome or metagenome	Use KAAS (http://www.genome.jp/tools/kaas/) or other methods to compare against KEGG GENES and assign K numbers to genes Use KEGG Mapper (http://www.kegg.jp/kegg/mapper.html) to infer high-level functions
Transcriptome	Use KEGG API (http://www.kegg.jp/kegg/rest/) or LinkDB (http://www.genome.jp/linkdb/) to convert user’s gene identifiers to K numbers or gene identifiers of KEGG organisms Use KEGG Mapper to infer high-level functions
Metabolome	Use KEGG API or LinkDB to convert user’s molecule identifiers to C numbers Use KEGG Mapper to infer high-level functions
Drug labels	Create links from drug labels or drug products to KEGG DRUG D numbers by matching the names of active ingredients Use KEGG Mapper tool ‘Join Brite’ (http://www.kegg.jp/kegg/tool/map_brite3.html) to map drug labels or drug products to KEGG BRITE drug classifications, such as shown in ATC Classification + NDC (http://www.kegg.jp/brite/br08303_ndc)