| Positive correlation | Negative correlation | ||
| Gene | r | Gene | r |
| nkx2.4a | 0.656 | meis1b | -0.106 |
| nkx2.1 | 0.299 | hoxb3a | -0.090 |
| pitx2 | 0.285 | hoxb9a | -0.084 |
| prdx1 | 0.279 | hoxc3a | -0.083 |
| wnt8b | 0.278 | hoxb8a | -0.074 |
| ccka | 0.246 | hoxd3a | -0.067 |
| LOC110438203 | 0.234 | hoxb1b | -0.065 |
| fezf2 | 0.234 | hoxc9a | -0.064 |
| emx2 | 0.215 | si:ch73-265d7.2 | -0.063 |
| id3 | 0.209 | hoxc8a | -0.062 |
| shha | 0.169 | hoxa3a | -0.062 |
| bsx | 0.165 | hoxd9a | -0.061 |
| barhl2 | 0.162 | hoxb7a | -0.061 |
| slc16a9a | 0.151 | hoxa9a | -0.060 |
| epha7 | 0.151 | pax3a | -0.060 |
| ptprn2 | 0.151 | tmsb4x | -0.056 |
| il34 | 0.151 | vim | -0.056 |
| sema3ab | 0.148 | meis2a | -0.055 |
| dbx1b | 0.144 | hoxa9b | -0.055 |
| ccl44 | 0.142 | hoxa10b | -0.054 |
| six6a | 0.140 | hoxb10a | -0.054 |
| wnt16 | 0.135 | sp8b | -0.053 |
| slc1a3b | 0.134 | tmeff1b | -0.053 |
| ntrk2a | 0.133 | calm2a | -0.053 |
| nell2a | 0.132 | hoxc1a | -0.052 |
| scgn | 0.127 | hoxc6b | -0.052 |
| LOC108191313 | 0.125 | meis1a | -0.051 |
| itgbl1 | 0.122 | syt2a | -0.051 |
| sim2 | 0.121 | tuba1a | -0.051 |
| grm2b | 0.117 | gpm6ab | -0.050 |
| barhl1b | 0.117 | znf503 | -0.050 |
| dbx1a | 0.117 | elavl4 | -0.049 |
| exoc3l1 | 0.115 | elavl3 | -0.049 |
| her9 | 0.107 | pax6a | -0.049 |
| pitx3 | 0.104 | raraa | -0.048 |