| Gene | Input weight | Standard | Rank | |
| SOX2 | - | -1 | 125 | |
| PAX2 | - | - | 459 | |
| NR4A3 | - | -1 | 594 | |
| CHRD | - | - | 697 | |
| LRP6 | - | - | 778 | |
| AMOT | - | - | 933 | |
| BMPR2 | - | -1 | 964 | |
| BMP7 | - | - | 987 | |
| OTX2 | - | -1 | 1295 | |
| DUSP5 | - | - | 1317 | |
| SMAD3 | - | - | 1541 | |
| PRKAR1A | - | -1 | 1718 | |
| LEF1 | - | - | 1731 | |
| FOXA2 | - | - | 1835 | |
| LHX1 | - | - | 1926 | |
| TENM4 | - | - | 1952 | |
| BMPR1A | - | - | 2059 | |
| DUSP1 | - | - | 2140 | |
| NODAL | - | -1 | 2184 | |
| WNT8B | - | - | 2506 | |
| CUL3 | 0.5 | 1 | 2576 | |
| T | - | - | 2584 | |
| SRF | - | - | 2700 | |
| HAND1 | - | - | 2763 | |
| SMAD1 | - | - | 2829 | |
| WNT5A | - | - | 2870 | |
| SMAD4 | - | - | 2927 | |
| KLF4 | - | - | 3003 | |
| FOXF1 | - | -1 | 3053 | |
| EPB41L5 | - | - | 3311 | |
| SOX17 | - | - | 3484 | |
| TLX2 | - | - | 3823 | |
| EXT1 | 0.25 | 1 | 3907 | |
| HOXA11 | - | - | 4215 | |
| DUSP4 | - | - | 4300 | |
| EYA2 | - | - | 4403 | |
| FGF8 | - | -1 | 4677 | |
| SOX7 | - | - | 4709 | |
| NANOG | - | - | 4730 | |
| NF2 | - | -1 | 4798 | |
| WNT3 | - | - | 4799 | |
| WNT3A | - | - | 4844 | |
| BMP4 | - | -1 | 5180 | |
| CER1 | - | - | 5192 | |
| TBX20 | - | -1 | 6000 | |
| CTNNB1 | 0.25 | 1 | 6229 | |
| SIX2 | - | - | 6713 | |
| WNT8A | - | - | 7061 | |
| SMAD2 | - | - | 7224 | |
| DUSP2 | - | - | 7903 | |
| GSC | - | - | 8075 | |
| FOXC2 | - | - | 8308 | |
| SNAI1 | - | - | 8474 | |
| RNF2 | - | - | 8552 | |
| PRKACA | - | - | 8797 | |
| TDGF1P3 | - | - | 9149 | |
| GDF3 | - | -1 | 9473 | |
| MIXL1 | - | - | 9542 | |
| INHBA | - | - | 9731 | |
| TGFBR2 | - | -1 | 9756 | |
| NAT8 | - | - | 10054 | |
| CFC1 | - | -1 | 10292 | |
| BBS4 | - | -1 | 10693 | |
| PPAP2B | - | - | 10712 | |
| AXIN1 | - | -1 | 10905 | |
| MESP1 | - | - | 10948 | |
| GATA4 | - | -1 | 11137 | |
| EOMES | - | - | 11394 | |
| NAT8B | - | - | 11702 | |
| WNT5B | - | - | 11732 | |
| FOXH1 | - | - | 11747 | |
| ACVR1 | - | -1 | 11780 | |
| DLD | - | -1 | 12236 | |
| FRS2 | - | - | 12610 | |
| JUP | - | -1 | 12627 | |
| MKKS | - | -1 | 12900 | |
| TRIM15 | - | - | 13912 | |
| CFC1B | - | - | 13945 | |
| EPHA2 | - | -1 | 14150 | |
| LDB1 | - | - | 14274 | |
| HIRA | - | - | 14983 | |
| FOXS1 | - | - | 15328 | |
| WLS | - | - | 16366 | |
| LRP5 | - | -1 | 16985 | |
| ARFRP1 | - | - | 20935 | |
| POU5F1 | - | - | 21422 | |
| TXNRD1 | - | - | 21631 | |
| UGDH | - | - | 22090 | |
| KIF16B | - | - | 22566 | |
| SUPT20H | - | - | 22685 | |
| FOXC1 | - | -1 | 22868 | |
| NSD1 | 0.25 | 1 | 23293 | |
| ECSIT | - | - | 23466 | |
| MESP2 | - | -1 | 23558 | |
| EXT2 | - | -1 | 24541 | |
| TWSG1 | - | - | 25171 |
GO:0007369
| Name | Description | External IDs |
| SOX2 | SRY (sex determining region Y)-box 2 | Entrez:6657 HGNC: 11195 HPRD: 08921 Ensembl: ENSG00000181449 |
| PAX2 | paired box 2 | Entrez:5076 HGNC: 8616 Ensembl: ENSG00000075891 HPRD: 01330 |
| NR4A3 | nuclear receptor subfamily 4, group A, member 3 | Entrez:8013 Ensembl: ENSG00000119508 HGNC: 7982 HPRD: 02766 |
| CHRD | chordin | Entrez:8646 Ensembl: ENSG00000090539 HGNC: 1949 HPRD: 04592 |
| LRP6 | low density lipoprotein receptor-related protein 6 | Entrez:4040 Ensembl: ENSG00000070018 HGNC: 6698 HPRD: 04617 |
| Geneset | Type | Freq. (Network vs Genome) | P-Value (FDR Corrected) | Genes |
| Gene | Description | Avg. edge score to query | Rank | In geneset | In query |
| SOX2 | SRY (sex determining region Y)-box 2 | ||||
| PAX2 | paired box 2 | ||||
| NR4A3 | nuclear receptor subfamily 4, group A, member 3 | ||||
| CHRD | chordin | ||||
| LRP6 | low density lipoprotein receptor-related protein 6 |
| Query gene | Gene | Gene description | Edge score |
| SOX2 | SOX2 | SRY (sex determining region Y)-box 2 | |
| PAX2 | PAX2 | paired box 2 | |
| NR4A3 | NR4A3 | nuclear receptor subfamily 4, group A, member 3 | |
| CHRD | CHRD | chordin | |
| LRP6 | LRP6 | low density lipoprotein receptor-related protein 6 |