A systematic comparison of the MetaCyc and KEGG pathway databases

BMC Bioinformatics

Table 13 Taxonomic analysis of MetaCyc base pathways that are not represented in KEGG pathways

ID	Taxon	Pathways	Unique Pathways	% Unique
131567	Cellular Organisms	1840	878	47.7
2759	Eukaryota	1094	512	46.8
33090	Viridiplantae (green plants)	650	348	53.5
35493	Streptophyta	374	222	59.4
3193	Embryophyta (plants)	373	221	59.2
58023	Tracheophyta (vascular plants)	298	181	60.7
78536	Euphyllophyta	289	175	60.6
58024	Spermatophyta (seed plants)	285	174	61.1
3398	Magnoliophyta (flowering plants)	262	168	64.1
91827	Core Eudicotyledons	162	108	66.7
71275	Rosids	100	71	71.0
33154	Opisthokonta	351	131	37.3
33208	Metazoa (multicellular animals)	129	47	36.4
7711	Chordata	54	20	37.0
7742	Vertebrata	52	20	38.5
4751	Fungi	219	78	35.6
2	Bacteria	1040	426	41.0
201174	Actinobacteria	72	37	51.4
1224	Proteobacteria (purple photosynthetic bacteria)	169	64	37.9
2157	Archaea	209	82	39.2

The ID column is the NCBI Taxonomy DB [42] identifier. The pathways column is the number of MetaCyc pathways that occur in that taxon based on its Taxonomic-Range slot. The unique pathways column is the number of MetaCyc base pathways for that taxon that are unique relative to KEGG pathways. The percent unique column is the fraction of MetaCyc base pathways for that taxon that are unique relative to KEGG pathways, with rows with a fraction greater than 50% shown in bold. The rows of the table are sorted with respect to the NCBI Taxonomy. Relative taxonomic rank is indicated by indentation. Taxa of the same rank are ordered by decreasing percent unique pathways. The taxon of “Cellular Organisms” is included to provide a baseline from which to compare other taxa.

ISSN: 1471-2105