Table 2.
Sources and numbers of reactions found in the MNXref 4.0 reconciliation. Secondary and deprecated identifiers are not counted here.
| Number of entries in | |||
|---|---|---|---|
| Resources | Prefixesa | Total | GSMs |
| BiGG (1) | biggR | 28167* | 41863* |
| KEGG (5) | keggR | 11161 | 3508 |
| MetaCYC (7) | metacycR | 17208 | 4898 |
| RHEA (9) | rheaR b | 12510 | 3989 |
| SABIO-RK (10) | sabiorkR | 8118 | 2319 |
| TheSEED (11) | seedR | 43855* | 19230* |
| MetaNetX/MNXref 4.0 | 37103 | 11968 | |
| ratio c | 3.26 | 6.87 | |
| others d | 6463* | ||
* Reactions with specific compartments (vs generic compartments).
aThese prefixes are used to refer external resources in the TAB-delimited and RDF distributions of MNXref.
bOnly master reactions of RHEA are counted here.
cAverage number of identifiers in external databases per MNXref entry.
dReactions only found in models, but most of them are formulated with metabolites in MNXref.