| Positive correlation | Negative correlation | ||
| Gene | r | Gene | r |
| foxa2 | 0.211 | CU467822.1 | -0.065 |
| her11 | 0.210 | ckbb | -0.065 |
| foxa | 0.176 | fabp3 | -0.064 |
| her5 | 0.175 | hbbe1.3 | -0.062 |
| otx2a | 0.170 | pvalb1 | -0.061 |
| shhb | 0.149 | fabp7a | -0.060 |
| foxa1 | 0.148 | pvalb2 | -0.060 |
| lmx1bb | 0.147 | hoxb9a | -0.058 |
| shha | 0.145 | actc1b | -0.056 |
| tmem88b | 0.142 | COX3 | -0.055 |
| barhl1a | 0.142 | hoxc3a | -0.055 |
| otx1 | 0.140 | hoxb8a | -0.054 |
| XLOC-032526 | 0.135 | mdkb | -0.054 |
| si:dkey-208c12.2 | 0.132 | CU634008.1 | -0.054 |
| CU929150.2 | 0.131 | gpm6aa | -0.052 |
| scospondin | 0.127 | si:ch211-251b21.1 | -0.051 |
| igf2b | 0.126 | hoxd3a | -0.051 |
| CABZ01075068.1 | 0.125 | hoxc9a | -0.050 |
| arxa | 0.124 | CR848047.1 | -0.050 |
| hspb1 | 0.115 | hbae3 | -0.050 |
| nr6a1a | 0.115 | hoxb3a | -0.050 |
| tpm4a | 0.114 | gas1b | -0.049 |
| nkx2.2b | 0.112 | atp1a1b | -0.048 |
| XLOC-026578 | 0.111 | hbae1.1 | -0.048 |
| zp2.1 | 0.110 | slc1a2b | -0.047 |
| XLOC-023308 | 0.107 | hoxa3a | -0.047 |
| epha7 | 0.106 | gpm6ab | -0.046 |
| loxl5b | 0.101 | pax3a | -0.046 |
| lgals2a | 0.100 | atp1b4 | -0.046 |
| TC2N | 0.096 | mylpfa | -0.046 |
| spon1b | 0.096 | hoxa9a | -0.045 |
| pcolce2a | 0.095 | hoxb1b | -0.044 |
| dclk3 | 0.093 | mdka | -0.044 |
| rspo2 | 0.092 | hoxd9a | -0.043 |
| hephl1a | 0.092 | tmsb | -0.043 |