| Gene | Input weight | Standard | Rank | |
| RUNX2 | - | -1 | 209 | |
| RARB | 0.25 | 1 | 325 | |
| SOX5 | 0.25 | 1 | 704 | |
| SOX9 | - | -1 | 1045 | |
| TRPS1 | - | -1 | 1089 | |
| PTHLH | - | -1 | 1269 | |
| RELA | - | - | 1352 | |
| SOX6 | - | - | 1939 | |
| NKX3-2 | - | - | 2048 | |
| SHOX2 | - | - | 2149 | |
| POR | 0.25 | 1 | 2359 | |
| ZBTB16 | - | - | 3976 | |
| HOXA11 | - | - | 4215 | |
| GDF5 | - | -1 | 4557 | |
| FGF18 | - | - | 4736 | |
| IHH | - | -1 | 4742 | |
| BMP4 | - | -1 | 5180 | |
| HOXD11 | 0.25 | 1 | 5555 | |
| AXIN2 | - | -1 | 5927 | |
| CTNNB1 | 0.25 | 1 | 6229 | |
| GLI3 | - | -1 | 9032 | |
| RARG | 0.25 | 1 | 10956 | |
| SCIN | - | - | 11105 | |
| PKDCC | - | - | 13669 | |
| WNT9A | - | - | 14123 | |
| GLG1 | - | - | 22724 | |
| SNAI2 | - | -1 | 22934 | |
| EFEMP1 | - | - | 24649 |
GO:0032330
| Name | Description | External IDs |
| RUNX2 | runt-related transcription factor 2 | Entrez:860  Ensembl: ENSG00000124813  HGNC: 10472  HPRD: 02566  |
| RARB | retinoic acid receptor, beta | Entrez:5915  HPRD: 07183  Ensembl: ENSG00000077092  HGNC: 9865  |
| SOX5 | SRY (sex determining region Y)-box 5 | Entrez:6660  HPRD: 18086  HGNC: 11201  Ensembl: ENSG00000134532  |
| SOX9 | SRY (sex determining region Y)-box 9 | Entrez:6662  HPRD: 06427  HGNC: 11204  Ensembl: ENSG00000125398  |
| TRPS1 | trichorhinophalangeal syndrome I | Entrez:7227  Ensembl: ENSG00000104447  HGNC: 12340  HPRD: 05091  |
| Geneset | Type | Freq. (Network vs Genome) | P-Value (FDR Corrected) | Genes |
| Gene | Description | Avg. edge score to query | Rank | In geneset | In query |
| RUNX2 | runt-related transcription factor 2 | ||||
| RARB | retinoic acid receptor, beta | ||||
| SOX5 | SRY (sex determining region Y)-box 5 | ||||
| SOX9 | SRY (sex determining region Y)-box 9 | ||||
| TRPS1 | trichorhinophalangeal syndrome I |
| Query gene | Gene | Gene description | Edge score |
| RUNX2 | RUNX2 | runt-related transcription factor 2 | |
| RARB | RARB | retinoic acid receptor, beta | |
| SOX5 | SOX5 | SRY (sex determining region Y)-box 5 | |
| SOX9 | SOX9 | SRY (sex determining region Y)-box 9 | |
| TRPS1 | TRPS1 | trichorhinophalangeal syndrome I |