| Positive correlation | Negative correlation | ||
| Gene | r | Gene | r |
| nkx2.4b | 0.656 | meis1b | -0.091 |
| pitx2 | 0.373 | hoxb3a | -0.081 |
| prdx1 | 0.333 | hoxc3a | -0.074 |
| wnt8b | 0.279 | hoxb9a | -0.072 |
| ccka | 0.220 | hoxb8a | -0.063 |
| nkx2.1 | 0.217 | si:ch73-265d7.2 | -0.061 |
| LOC110438203 | 0.211 | hoxb1b | -0.061 |
| barhl2 | 0.205 | hoxd3a | -0.061 |
| id3 | 0.187 | hoxc9a | -0.057 |
| bsx | 0.186 | hoxa3a | -0.055 |
| shha | 0.182 | vim | -0.054 |
| dbx1a | 0.173 | hoxd9a | -0.053 |
| dbx1b | 0.170 | hoxa9a | -0.053 |
| fezf2 | 0.164 | hoxb7a | -0.053 |
| epha7 | 0.164 | pax3a | -0.052 |
| pitx3 | 0.162 | hoxc8a | -0.051 |
| barhl1b | 0.160 | hoxa9b | -0.051 |
| scgn | 0.153 | hoxb10a | -0.049 |
| il34 | 0.148 | meis2a | -0.048 |
| ptprn2 | 0.145 | hoxa10b | -0.048 |
| emx2 | 0.140 | meis1a | -0.047 |
| exoc3l1 | 0.127 | hoxc6b | -0.047 |
| wnt16 | 0.123 | calm2a | -0.047 |
| nell2a | 0.121 | gpm6ab | -0.046 |
| lmx1ba | 0.116 | hoxc1a | -0.046 |
| si:dkey-219c10.4 | 0.116 | sp8b | -0.045 |
| slc16a9a | 0.116 | znf503 | -0.045 |
| si:ch211-131k2.2 | 0.115 | raraa | -0.044 |
| lmx1bb | 0.114 | elavl4 | -0.043 |
| sim2 | 0.114 | pax6a | -0.043 |
| sema3ab | 0.112 | cadm3 | -0.043 |
| sim2.1 | 0.112 | meis2b | -0.043 |
| rasd3 | 0.111 | col11a1a | -0.043 |
| itprid1 | 0.111 | hoxa11b | -0.043 |
| ankrd63 | 0.108 | syt2a | -0.043 |