| MtbRvCyc | CauloCyc | VchoCyc | |
| # of pathway holes in PGDB | 313 | 255 | 276 |
| # of incomplete pathways | 118 | 99 | 116 |
| pathway holes w/ isozyme sequences | 195 | 162 | 156 |
| candidates with P>0.9 | 84 | 71 | 82 |
| candidates annotated with
pathway hole function in PGDB |
78 | 53 | 59 |
| candidates with borderline P (0.5 to 0.9) | 37 | 17 | 11 |
| holes filled with hypothetical proteins (P>0.8) | 9 | 2 | 6 |
We have made putative functional assignments to genes in MtbRvCyc, CauloCyc, and VchoCyc. These functional assignments were made to fill pathway holes in these databases. A pathway hole occurs when a reaction in a pathway does not have an assigned enzyme. The putative enzymes that fill these pathway holes were identified using a prediction program developed by Green and Karp (manuscript submitted). Each enzymatic reaction linked to an enzyme by this program is identified by the evidence code "Computational Evidence: EV-COMP-HINF-FN-FROM-SEQ". The evidence code indicates the source of information as computationally-derived from sequence analysis with human review. The gene product field of the corresponding enzyme has also been updated to include the functional description of the reaction to which it has been linked. A list of the remaining pathway holes may be found in the Missing Reactions Report for each PGDB.