| Positive correlation | Negative correlation | ||
| Gene | r | Gene | r |
| otx2a | 0.294 | hoxb3a | -0.133 |
| zgc:101100 | 0.202 | meis1b | -0.127 |
| helt | 0.197 | hoxc3a | -0.119 |
| BX649529.1 | 0.165 | hoxb9a | -0.118 |
| en2b | 0.151 | hoxb8a | -0.108 |
| irx7 | 0.140 | hoxd3a | -0.099 |
| dmrta2 | 0.139 | hoxb1b | -0.096 |
| otx2b | 0.138 | hoxc9a | -0.095 |
| foxg1a | 0.133 | hoxa3a | -0.095 |
| podxl | 0.125 | si:ch73-265d7.2 | -0.094 |
| foxa1 | 0.119 | hoxa9a | -0.087 |
| emx2 | 0.118 | hoxd9a | -0.087 |
| emx3 | 0.115 | hoxb7a | -0.087 |
| si:ch211-69b22.5 | 0.114 | hoxa9b | -0.082 |
| marcksl1a | 0.114 | hoxa10b | -0.081 |
| irx1a | 0.113 | hoxc8a | -0.081 |
| dmbx1a | 0.113 | vim | -0.081 |
| ptprn2 | 0.111 | hoxb10a | -0.080 |
| her6 | 0.109 | meis1a | -0.078 |
| foxa2 | 0.109 | hoxc1a | -0.076 |
| cdh5 | 0.108 | hoxc6b | -0.075 |
| sfrp5 | 0.107 | ptmaa | -0.073 |
| si:ch211-212k18.5 | 0.106 | znf503 | -0.070 |
| shha | 0.103 | hoxc4a | -0.069 |
| fgfr2 | 0.102 | meis2a | -0.069 |
| zgc:165461 | 0.102 | hoxa11b | -0.068 |
| slc1a3b | 0.100 | hoxb6b | -0.067 |
| fezf2 | 0.099 | hoxd10a | -0.065 |
| CR751602.2 | 0.097 | raraa | -0.064 |
| wls | 0.096 | meis2b | -0.064 |
| rspo2 | 0.095 | tshz1 | -0.064 |
| en2a | 0.094 | hoxd12a | -0.064 |
| ptn | 0.093 | gbx1 | -0.064 |
| sim2 | 0.092 | si:dkeyp-110a12.4 | -0.063 |
| arxa | 0.092 | hoxb6a | -0.063 |