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Table 3 Statistics of the pathway database comparison

From: Critical assessment of human metabolic pathway databases: a stepping stone for future integration

  Number of (percentage of union)
  Genes EC numbers Metabolites Reactions Reactions (ignoring e - , H + , H 2 O)
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%)
  1. 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.