| Positive correlation | Negative correlation | ||
| Gene | r | Gene | r |
| hoxa11b | 0.445 | celf2 | -0.075 |
| hoxd9a | 0.445 | si:ch211-152c2.3 | -0.053 |
| hoxd10a | 0.418 | fabp7a | -0.049 |
| hoxb10a | 0.405 | rorb | -0.046 |
| hoxa9b | 0.381 | en2b | -0.045 |
| hoxd12a | 0.370 | otx2a | -0.043 |
| hoxc10a | 0.349 | otx2b | -0.043 |
| hoxd11a | 0.337 | foxg1b | -0.042 |
| hoxa9a | 0.329 | six3b | -0.041 |
| hoxb9a | 0.327 | otx1 | -0.038 |
| hoxc11a | 0.313 | six6b | -0.038 |
| hoxa11a | 0.303 | ptprn2 | -0.037 |
| BX005254.3 | 0.267 | foxg1a | -0.036 |
| hoxc9a | 0.265 | fzd5 | -0.035 |
| hoxc11b | 0.264 | shisa2a | -0.035 |
| hoxb7a | 0.257 | slc29a1a | -0.035 |
| hoxc3a | 0.249 | six3a | -0.034 |
| hoxc6b | 0.217 | tbx2b | -0.034 |
| hoxd3a | 0.217 | top1l | -0.034 |
| BX005254.2 | 0.206 | crx | -0.033 |
| hoxa13b | 0.193 | irx7 | -0.033 |
| cdx4 | 0.189 | mid1ip1b | -0.032 |
| hoxc12b | 0.189 | otx5 | -0.032 |
| hoxd13a | 0.185 | si:ch1073-80i24.3 | -0.032 |
| hoxc8a | 0.182 | stm | -0.032 |
| ldlrad2 | 0.179 | hes2.2 | -0.031 |
| BX001014.2 | 0.177 | mir181b-3 | -0.031 |
| si:dkeyp-110a12.4 | 0.170 | nnr | -0.031 |
| her1 | 0.166 | nr2e1 | -0.031 |
| hoxc13a | 0.163 | prdx2 | -0.031 |
| hoxc12a | 0.162 | CR751602.2 | -0.030 |
| sall4 | 0.154 | en2a | -0.030 |
| mllt3 | 0.150 | hmx4 | -0.030 |
| si:ch73-265d7.2 | 0.144 | im:7152348 | -0.030 |
| hoxb1b | 0.143 | LOC108190024 | -0.030 |