Table 4. Twenty genes that show the greatest increases or decreases in transcript levels in the TRACK TG+ vs. WT kidneys by RNAseq.
| fold-change TRACK TG+/TG- | p-value | q-value | Gene | TCGA Human ccRCC/normal kidney fold change | Oncomine Human ccRCC/normal kidney median fold change |
|---|---|---|---|---|---|
| Increased in TRACK | |||||
| 260.2342364 | 5e-05 | 2.77e-04 | F2 | 11.76 | 1.008 |
| 241.0075905 | 5e-05 | 2.77e-04 | IGFBP2 | 0.29 | -5.309 |
| 212.4951738 | 5e-05 | 2.77e-04 | GRIN1 | 2.67 | 1.342 |
| 208.5679355 | 5e-05 | 2.77e-04 | AIRE | 2.06 | -1.075 |
| 196.9580885 | 5e-05 | 2.77e-04 | APOA4 | 244.29 | -1.227 |
| 158.8470346 | 5e-05 | 2.77e-04 | RBP4 | 1.11 | -1.13 |
| 148.1545998 | 5e-05 | 2.77e-04 | APOC3 | 3.61 | -1.815 |
| 127.8628806 | 5e-05 | 2.77e-04 | A2M | 1.16 | 1.809 |
| 114.6301281 | 5e-05 | 2.77e-04 | SLC16A3 | 8.15 | 7.132 |
| 97.86820107 | 5e-05 | 2.77e-04 | ADAM7 | 7.79 | 1.07 |
| 86.29550828 | 5e-05 | 2.77e-04 | ZFP92 | 0.74 | -0.0815 |
| 78.7336936 | 6e-04 | 0.00266966 | CRISP1 | 0.21 | -1.003 |
| 77.00377581 | 5e-05 | 2.77e-04 | AREG | 1.43 | 1.312 |
| 70.96599132 | 5e-05 | 2.77e-04 | RASGRF2 | 1.10 | 1.568 |
| 70.39792583 | 5e-05 | 2.77e-04 | NLRP10 | 0.29 | -1.286 |
| 70.39041145 | 5e-05 | 2.77e-04 | HK2 | 10.17 | 13.568 |
| 67.9251413 | 5e-05 | 2.77e-04 | NDUFA4L2 | 44.88 | 53.935 |
| 50.96140222 | 0.00015 | 0.000762465 | CPB2 | 8.97 | 1.035 |
| 42.27652553 | 5e-05 | 2.77e-04 | ANKRD37 | 2.15 | 3.846 |
| 38.17346108 | 5e-05 | 2.77e-04 | DKK1 | 1.51 | -1.058 |
| Decreased in TRACK | |||||
| 0.03993031 | 0.0145 | 0.0431824 | DIO3OS | 5.18 | -1.025 |
| 0.042320553 | 5e-05 | 2.77e-04 | SOX2OT | 0.38 | -2.8495 |
| 0.112181952 | 0.0017 | 0.0067467 | KRT13 | 0.37 | -1.020 |
| 0.122714679 | 5e-05 | 2.77e-04 | HPD | 0.04 | -79.57 |
| 0.196070105 | 5e-05 | 2.77e-04 | IDO2 | 1.58 | 1.019 |
| 0.215859171 | 5e-05 | 2.77e-04 | C4A | 3.40 | 2.176 |
| 0.218647669 | 5e-05 | 2.77e-04 | HRG | 0.24 | -14.081 |
| 0.251872656 | 5e-05 | 2.77e-04 | AZGP1 | 0.29 | -12.585 |
| 0.312454798 | 5e-05 | 2.77e-04 | NLRC4 | 3.32 | -1.0665 |
| 0.31642082 | 5e-05 | 2.77e-04 | PZP | 1.14 | 1.012 |
| 0.327772061 | 5e-05 | 2.77e-04 | CTXN3 | 0.10 | -7.343 |
| 0.331900011 | 5e-05 | 2.77e-04 | ANXA13 | 3.27 | 1.971 |
| 0.361353874 | 5e-05 | 2.77e-04 | UPP2 | 0.04 | -5.804 |
| 0.378206047 | 5e-05 | 2.77e-04 | APOH | 1.23 | -6.871 |
| 0.39051491 | 5e-05 | 2.77e-04 | CD5L | 29.99 | -1.017 |
| 0.409784094 | 5e-05 | 2.77e-04 | TMEM28 | 0.60 | -1.095 |
| 0.426331824 | 5e-05 | 2.77e-04 | CNDP2 | 1.59 | 1.185 |
| 0.42792761 | 5e-05 | 2.77e-04 | FCAMR | 0.37 | -2.2115 |
| 0.429718771 | 0.0156 | 0.0459592 | ANGPTL7 | 0.34 | -1.049 |
| 0.436898506 | 0.0156 | 0.0459592 | GPT | 0.71 | -1.344 |
The list of the top 20 genes that show elevated or decreased transcript levels in the TRACK TG+ vs. TG- kidneys was compiled from the RNAseq results. The fold changes in mRNA levels of these genes in human ccRCC were compiled from Oncomine (median fold changed are used here) by combining five different sets of human ccRCC patient samples (see Table 1 for more information) or from TCGA. Genes that have no measurements in all five datasets were excluded from this list.