Table 1.

The degree to which ModelSEED biochemistry was integrated from different data sources via different means: structure, identifier and synonym

Sources	Integrated compounds	Integrated reactions	Unintegrated compounds	Unintegrated reactions
KEGG/MetaCyc	6290 (6229)	4889 (4777)	24 318 (21 858)	22 902 (19 251)
BioCyc (11 databases)	6960 (6896)	6736 (6599)	997	1613
Published models (34 models)	3688	4332	1792	5406

It should be noted that the integration was done in stages (see ‘Biochemical integration’), so ‘unintegrated’ for KEGG and MetaCyc means not integrated with each other, but ‘unintegrated’ for published models means not integrated with either KEGG, MetaCyc or BioCyc. For KEGG/MetaCyc, the number in parentheses are for integration using structures only, and for BioCyc, the numbers in parentheses are for integration using BioCyc identifiers only.