| Positive correlation | Negative correlation | ||
| Gene | r | Gene | r |
| otx1 | 0.294 | meis1b | -0.154 |
| helt | 0.292 | hoxb3a | -0.152 |
| zgc:101100 | 0.274 | hoxb9a | -0.135 |
| irx1a | 0.198 | hoxc3a | -0.135 |
| otx2b | 0.191 | vim | -0.123 |
| dmrta2 | 0.186 | hoxb8a | -0.122 |
| CR751602.2 | 0.173 | hoxd3a | -0.112 |
| irx7 | 0.170 | hoxb1b | -0.109 |
| foxa1 | 0.169 | si:ch73-265d7.2 | -0.108 |
| shha | 0.160 | hoxc9a | -0.105 |
| ptprn2 | 0.160 | hoxa3a | -0.104 |
| sim2.1 | 0.157 | hoxa9a | -0.099 |
| foxa2 | 0.151 | hoxd9a | -0.096 |
| lrrn1 | 0.146 | hoxb7a | -0.095 |
| barhl1a | 0.145 | hoxc8a | -0.095 |
| nkx2.9 | 0.141 | hoxa9b | -0.092 |
| sim2 | 0.140 | hoxb10a | -0.089 |
| podxl | 0.137 | hoxa10b | -0.088 |
| si:ch73-30b17.2 | 0.135 | hoxc1a | -0.087 |
| nr2f1b | 0.134 | hoxc6b | -0.087 |
| cdh5 | 0.132 | meis1a | -0.087 |
| en2b | 0.129 | meis2a | -0.083 |
| irx2a | 0.129 | znf503 | -0.079 |
| sox11a | 0.129 | hoxc4a | -0.077 |
| si:ch211-212k18.5 | 0.128 | hoxb6b | -0.075 |
| emx2 | 0.125 | hoxa11b | -0.075 |
| CR936482.1 | 0.121 | meis2b | -0.074 |
| sox19a | 0.121 | hoxd10a | -0.073 |
| ntn1a | 0.120 | cldn19 | -0.073 |
| marcksl1a | 0.120 | tshz1 | -0.072 |
| nkx2.2a | 0.119 | raraa | -0.072 |
| mbd3b | 0.117 | ptmaa | -0.072 |
| pou3f3a | 0.116 | dnmt3ab | -0.071 |
| cldn5a | 0.116 | si:ch211-251b21.1 | -0.071 |
| her15.1 | 0.116 | si:dkeyp-110a12.4 | -0.071 |