| Gene | Input weight | Standard | Rank | |
| SOX2 | - | -1 | 125 | |
| PTHLH | - | -1 | 1269 | |
| DUSP5 | - | - | 1317 | |
| SMAD3 | - | - | 1541 | |
| FOXA2 | - | - | 1835 | |
| LHX1 | - | - | 1926 | |
| HOXC11 | - | - | 1946 | |
| BMPR1A | - | - | 2059 | |
| DUSP1 | - | - | 2140 | |
| NODAL | - | -1 | 2184 | |
| NKX2-1 | - | - | 2488 | |
| WNT8B | - | - | 2506 | |
| SMAD4 | - | - | 2927 | |
| EPB41L5 | - | - | 3311 | |
| NOTCH1 | - | -1 | 3360 | |
| SOX17 | - | - | 3484 | |
| EXT1 | 0.25 | 1 | 3907 | |
| DUSP4 | - | - | 4300 | |
| WNT11 | - | - | 4528 | |
| SOX7 | - | - | 4709 | |
| NANOG | - | - | 4730 | |
| TBX20 | - | -1 | 6000 | |
| CTNNB1 | 0.25 | 1 | 6229 | |
| DKK1 | - | - | 6892 | |
| WNT8A | - | - | 7061 | |
| SMAD2 | - | - | 7224 | |
| DUSP2 | - | - | 7903 | |
| WNT9B | - | - | 8495 | |
| GDF3 | - | -1 | 9473 | |
| MIXL1 | - | - | 9542 | |
| HNF1B | - | -1 | 9562 | |
| ARC | 0.25 | 1 | 9982 | |
| PAX9 | - | -1 | 10534 | |
| GATA4 | - | -1 | 11137 | |
| EOMES | - | - | 11394 | |
| GATA6 | - | -1 | 13349 | |
| WNT9A | - | - | 14123 | |
| TGFB1 | 0.25 | 1 | 14736 | |
| POU5F1 | - | - | 21422 | |
| WNT4 | - | - | 21840 | |
| KIF16B | - | - | 22566 | |
| LAMC1 | - | - | 24046 |
GO:0007492
| Name | Description | External IDs |
| SOX2 | SRY (sex determining region Y)-box 2 | Entrez:6657  HGNC: 11195  HPRD: 08921  Ensembl: ENSG00000181449  |
| PTHLH | parathyroid hormone-like hormone | Entrez:5744  HPRD: 01348  Ensembl: ENSG00000087494  HGNC: 9607  |
| DUSP5 | dual specificity phosphatase 5 | Entrez:1847  HGNC: 3071  HPRD: 04349  Ensembl: ENSG00000138166  |
| SMAD3 | SMAD family member 3 | Entrez:4088  HPRD: 04380  HGNC: 6769  Ensembl: ENSG00000166949  |
| FOXA2 | forkhead box A2 | Entrez:3170  HGNC: 5022  Ensembl: ENSG00000125798  HPRD: 02618  |
| 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 | ||||
| PTHLH | parathyroid hormone-like hormone | ||||
| DUSP5 | dual specificity phosphatase 5 | ||||
| SMAD3 | SMAD family member 3 | ||||
| FOXA2 | forkhead box A2 |
| Query gene | Gene | Gene description | Edge score |
| SOX2 | SOX2 | SRY (sex determining region Y)-box 2 | |
| PTHLH | PTHLH | parathyroid hormone-like hormone | |
| DUSP5 | DUSP5 | dual specificity phosphatase 5 | |
| SMAD3 | SMAD3 | SMAD family member 3 | |
| FOXA2 | FOXA2 | forkhead box A2 |