Table 3. Associations between CNA and expression, and comparison of mRNA expression between ccRCC and non-ccRCC kidney cancer subtypes.
| Gene | CNA/mRNA Correlation | ccRCC/non-ccRCC Comparison | ||
|---|---|---|---|---|
| Spearman | Kendall | Pearson | T statistics | |
| WHSC1L1 | 0.689 | 0.596 | 0.669 | −0.09 |
| SETDB1 | 0.580 | 0.509 | 0.597 | −0.02 |
| NSD1 | 0.517 | 0.449 | 0.502 | −0.08 |
| SMYD3 | 0.470 | 0.419 | 0.504 | −0.34 |
| EZH2 | 0.462 | 0.414 | 0.459 | −0.07 |
| SMYD2 | 0.433 | 0.392 | 0.427 | −0.14 |
| SUV39H2 | 0.416 | 0.376 | 0.478 | −0.09 |
| PRDM1 | 0.394 | 0.357 | 0.374 | −0.10 |
| PRDM6 | 0.384 | 0.343 | 0.369 | 0.20 |
| ASH1L | 0.380 | 0.345 | 0.389 | −0.08 |
| SETD1A | 0.273 | 0.240 | 0.234 | 0.02 |
| PRDM11 | 0.242 | 0.215 | 0.179 | −0.07 |
| SMYD4 | 0.189 | 0.177 | 0.158 | −0.07 |
| MECOM | 0.176 | 0.159 | 0.156 | −1.32 |
| PRDM8 | 0.162 | 0.154 | 0.164 | −0.22 |
| PRDM13 | 0.161 | 0.159 | 0.103 | −0.29 |
| SMYD1 | 0.159 | 0.157 | 0.185 | 0.06 |
| PRDM10 | 0.157 | 0.149 | 0.133 | −0.10 |
| PRDM4 | 0.086 | 0.089 | 0.087 | −0.26 |
| SUV420H1 | 0.087 | 0.091 | 0.085 | −0.15 |
| SETD1B | 0.071 | 0.066 | 0.058 | −0.07 |
| EHMT1 | 0.070 | 0.064 | 0.079 | 0.01 |
| SETD8 | 0.068 | 0.063 | 0.058 | −0.02 |
| SETD6 | 0.067 | 0.062 | 0.068 | 0.02 |
| SETMAR | 0.063 | 0.058 | 0.043 | −0.23 |
| EZH1 | 0.061 | 0.057 | 0.052 | −0.02 |
| DOT1L | 0.060 | 0.056 | 0.049 | 0.15 |
| SETD3 | 0.059 | 0.055 | 0.072 | −0.10 |
| PRDM15 | 0.023 | 0.019 | 0.031 | 0.05 |
| WHSC1 | 0.022 | 0.019 | 0.010 | −0.03 |
| SETD5 | 0.021 | 0.018 | 0.008 | 0.00 |
| PRDM7 | 0.020 | 0.018 | 0.015 | −0.11 |
| PRDM14 | 0.018 | 0.016 | 0.023 | −0.31 |
| SETDB2 | 0.016 | 0.014 | 0.021 | −0.08 |
| PRDM5 | 0.011 | 0.009 | 0.003 | −0.58 |
| PRDM12 | 0.010 | 0.009 | 0.001 | −0.32 |
| PRDM9 | 0.009 | 0.009 | 0.002 | −0.32 |
| PRDM16 | 0.008 | 0.007 | 0.048 | −1.50 |
| PRDM2 | 0.008 | 0.007 | 0.020 | −0.14 |
| SUV39H1 | 0.007 | 0.006 | 0.010 | −0.03 |
| SETD4 | 0.003 | 0.003 | 0.017 | −0.06 |
| SETD2 | 0.002 | 0.002 | 0.002 | 0.01 |
| SETD7 | 0.001 | 0.001 | 0.001 | −0.07 |
| SMYD5 | 0.001 | 0.000 | 0.029 | −0.06 |
| EHMT2 | 0.000 | 0.000 | 0.022 | −0.14 |
Notes:
Genes were ranked based on the Spearman correlation coefficient. Significantly higher expression of HMTs in the ccRCC subtype is highlighted in dark gray, and significantly lower expression is highlighted in little gray. T statistics represents the T statistic, which is equivalent to the number of standard deviations of mRNA expression levels between the ccRCC and non-ccRCC subtypes. A positive value means that the ccRCC subtype has a higher value, and a negative value means that the ccRCC subtype has a lower value than the non-ccRCC subtypes samples.