| Positive correlation | Negative correlation | ||
| Gene | r | Gene | r |
| nkx2.4b | 0.412 | meis1b | -0.079 |
| nkx2.4a | 0.344 | mab21l1 | -0.072 |
| lhx6 | 0.266 | mab21l2 | -0.070 |
| lhx8a | 0.236 | meis2a | -0.066 |
| sox1b | 0.230 | hoxb3a | -0.066 |
| dlx5a | 0.229 | ebf3a | -0.064 |
| lhx8b | 0.229 | irx1a | -0.063 |
| dlx2a | 0.223 | pax3a | -0.063 |
| prdx1 | 0.213 | en2b | -0.059 |
| dlx1a | 0.201 | irx5a | -0.059 |
| six6a | 0.200 | gas1b | -0.058 |
| fzd5 | 0.184 | ebf1a | -0.057 |
| bsx | 0.175 | sb:cb81 | -0.057 |
| arxa | 0.174 | irx3a | -0.056 |
| LOC108191313 | 0.170 | rbfox1 | -0.056 |
| six6b | 0.169 | zeb2a | -0.055 |
| dlx6a | 0.168 | irx3b | -0.055 |
| id3 | 0.160 | gas1a | -0.053 |
| fezf2 | 0.156 | zic2b | -0.053 |
| dlx2b | 0.148 | znf503 | -0.052 |
| CU929240.1 | 0.148 | pax6a | -0.052 |
| nrp2b | 0.145 | nrn1a | -0.051 |
| rx3 | 0.144 | raraa | -0.051 |
| tbx3a | 0.140 | rarga | -0.051 |
| sfrp5 | 0.139 | meis2b | -0.050 |
| foxg1a | 0.136 | zic2a | -0.050 |
| sox1a | 0.134 | apoeb | -0.049 |
| arxb | 0.131 | scrt2 | -0.049 |
| six3b | 0.129 | tfap2a | -0.049 |
| foxd2 | 0.124 | msx1b | -0.047 |
| vax1 | 0.124 | lrrn1 | -0.046 |
| shha | 0.123 | irx1b | -0.046 |
| wnt16 | 0.111 | lhx9 | -0.045 |
| LOC110438203 | 0.111 | BX927258.1 | -0.045 |
| sp9 | 0.111 | rbfox3a | -0.044 |