Table 2 Example of overlap among gene sets related to arginine biosynthesis
From: Evaluating the consistency of gene sets used in the analysis of bacterial gene expression data
GeneID from the SEED | Functional role | Arginine Biosynthesis Extended (SEED: SUBS) | GO: 0006526(Arginine Biosynthetic Process; BP) | Alanine, aspartate and glutamate metabolism (eco00250: KEGG) | Arginine and Proline Metabolism (eco00330: KEGG) | Glutamate to Arginine (SEED: Scenario, Path) | MO: Predicted Operons |
|---|---|---|---|---|---|---|---|
fig|83333.1.peg.269 | Ornithine carbamoyltransferase (EC 2.1.3.3) | + | M | M | + | + | None |
fig|83333.1.peg.2440 | N-succinyl-L,L-diaminopimelatedesuccinylase (EC 3.5.1.18) | + | + | M | M | M | with peg.2339 |
fig|83333.1.peg.2771 | N-acetylglutamate synthase (EC 2.3.1.1) | + | + | M | + | + | None |
fig|83333.1.peg.3116 | Argininosuccinate synthase (EC 6.3.4.5) | + | + | + | + | + | None |
fig|83333.1.peg.3181 | Arginine pathway regulatory protein ArgR, repressor of argregulon | + | M | M | M | M | None |
fig|83333.1.peg.3294 | Acetylornithine and N-succinyl-L,L-diaminopimelateaminotransferase (EC 2.6.1.11 and EC 2.6.1.17) | + | M | M | + | + | None |
fig|83333.1.peg.3877 | Acetylornithinedeacetylase (EC 3.5.1.16) | + | + | M | + | + | None |
fig|83333.1.peg.3878 | N-acetyl-gamma-glutamyl-phosphate reductase (EC 1.2.1.38) | + | + | M | + | + | with peg.3879 and peg.3880 |
fig|83333.1.peg.3879 | Acetylglutamate kinase (EC 2.7.2.8) | + | + | M | + | + | with peg.3878 and peg.3880 |
fig|83333.1.peg.3880 | Argininosuccinatelyase (EC 4.3.2.1) | + | + | + | + | + | with peg.3878 and peg.3879 |
fig|83333.1.peg.4164 | Ornithine carbamoyltransferase (EC 2.1.3.3) | + | M | M | + | + | None |
Number of other genes in the set1 | 0 | 2 | 28 | 34 | 0 |