Table 3

Statistics of the pathway database comparison

Number of (percentage of union)


Genes

EC numbers

Metabolites

Reactions

Reactions (ignoring e-, H+, H2O)


union

3858

1410

4679

7758

6968

consensus

510 (13%)

259 (18%)

400 (9%)

101 (1%)

199 (3%)

majority score

1636 (42%)

709 (50%)

967 (21%)

732 (9%)

1004 (14%)


Database

Unique per database (percentage of union)


BiGG

45 (1%)

48 (3%)

528 (11%)

1441 (19%)

1250 (18%)

EHMN

128 (3%)

82 (6%)

1184 (25%)

2120 (27%)

1832 (26%)

HumanCyc

759 (20%)

294 (21%)

739 (16%)

1032 (13%)

905 (13%)

KEGG

63 (2%)

13 (1%)

282 (6%)

414 (5%)

348 (5%)

Reactome

144 (4%)

11 (1%)

406 (9%)

601 (8%)

539 (8%)


Total

1139 (30%)

448 (32%)

3139 (67%)

5608 (72%)

4874 (70%)


Genes: Entrez Gene IDs, including genes encoding for a component of a protein complex as separate entities. EC numbers: only fully specified EC numbers. Metabolites: if two metabolites of one database both match the same metabolite in another database this is counted as one match. The first 'Reactions' column: all reactions are considered. The second 'Reactions' column: reactions were not required to match on e-, H+ and/or H2O.

Stobbe et al. BMC Systems Biology 2011 5:165   doi:10.1186/1752-0509-5-165

Open Data