Table 5. Evaluation of gene expression data by qRT–PCR.
| Gene | o maska | HS maskb | LS maskc | qRT–PCRd | ||||
|---|---|---|---|---|---|---|---|---|
| Ratio | Probes | Ratio | Probes | Ratio | Probes | |||
| CFT073 | accC | –1.3 | 15 | –2.0 | 5 | –1.8 | 8 | –2.1 |
| dnaJ | 2.0 | 15 | 1.4 | 6 | 1.4 | 9 | 1.0 | |
| hisB | –1.4 | 15 | –2.2 | 6 | –2.2 | 6 | –2.4 | |
| lgt | 2.7 | 14 | 1.3 | 6 | 1.6 | 8 | 1.3 | |
| lldP | 5.3 | 15 | 1.3 | 5 | 2.0 | 7 | –1.1 | |
| oppB | 3.2 | 15 | 1.0 | 5 | 1.2 | 6 | –1.2 | |
| pssR | 2.5 | 11 | 1.0 | 5 | 1.3 | 6 | 1.1 | |
| slpA | 2.6 | 15 | 1.5 | 6 | 1.6 | 7 | 1.3 | |
| sucD | –1.4 | 15 | –2.1 | 8 | –1.9 | 11 | –1.5 | |
| O157:H7 EDL933 | cutF | 2.6 | 15 | 1.1 | 5 | 1.2 | 6 | 1.3 |
| eco | 2.1 | 15 | 1.2 | 8 | 1.2 | 9 | –1.2 | |
| lspA | 3.2 | 15 | 1.5 | 8 | 1.6 | 10 | 1.8 | |
| mopA | –1.5 | 15 | –3.0 | 8 | –3.1 | 11 | –3.6 | |
| rplW | –1.3 | 14 | –2.0 | 5 | –1.3 | 13 | –1.8 | |
| sodA | 2.6 | 15 | 1.3 | 4 | 1.3 | 7 | 1.2 | |
| thiL | –1.5 | 14 | –2.2 | 7 | –1.9 | 8 | –5.0 | |
| pspE | 2.0 | 15 | –1.1 | 8 | 1.4 | 11 | –2.1 | |
| yaeC | 2.6 | 15 | 1.4 | 7 | 1.1 | 8 | –3.1 | |
| yfiD | 1.1 | 14 | –3.9 | 7 | –4.0 | 7 | –1.3 | |
aRatio of gene expression level of K12 MG1655 and the indicated strain before masking and number of probe pairs used for this calculation.
bRatio of gene expression level of K12 MG1655 and the indicated strain after application of the high stringency electronic mask and the number of probe pairs used for this calculation.
cRatio of gene expression level of K12 MG1655 and the indicated strain after application of the low stringency electronic mask and the number of probe pairs used for this calculation.
dRatio of gene expression level of K12 MG1655 and the indicated strain as determined by quantitative RT–PCR.