Table 1.
Genes differentially expressed in chordoma and chondrosarcoma tumors
| Gene symbol | Gene title | P value | Fold change | Chromosomal location | Gene ontology Biological process |
|---|---|---|---|---|---|
| Genes expressed in both chordoma and chondrosarcoma samples | |||||
| COL2A1 | Collagen, type II, alpha 1 | 4.77E-08 | 65.61 | 12q13.11 | Skeletal development |
| AGC1 | Aggrecan 1 | 1.22E-11 | 43.57 | 15q26.1 | Cell adhesion |
| FN1 | Fibronectin 1 | 6.4E-08 | 31.35 | 2q34 | Cell adhesion |
| MUC1 | Mucin 1, transmembrane | 1.04E-06 | 19.84 | 1q21 | Extracellular matrix |
| CTGF | Connective tissue growth factor | 0.00013 | 11.65 | 6q23.1 | Regulation of cell growth |
| HMW-MAA | High molecular weight melanoma associated antigen | 1.3E-05 | 9.54 | 15q23 | Cell motility |
| S100P | S100 calcium binding protein P | 3.82E-05 | 22.95 | 4p16 | Regulation of cell cycle |
| FOSB | FBJ murine osteosarcoma viral oncogene homolog B | 9.25E-06 | 19.41 | 19q13.32 | Regulation of cell cycle |
| MMP9 | Matrix metalloproteinase 9 | 7.72E-05 | 8.48 | 20q11.2 | Peptidoglycan metabolism |
| MMP19 | Matrix metalloproteinase 19 | 0.000155 | 10.87 | 12q14 | Peptidoglycan metabolism |
| ITGBL1 | Integrin, beta-like 1 | 0.000698 | 10.23 | 13q33 | Cell-matrix adhesion |
| SOX9 | SRY (sex determining region Y)-box 9 | 0.000194 | 7.07 | 17q24.3 | Skeletal development |
| MATN3 | Matrilin 3 | 0.000777 | 5.75 | 2p24-p23 | Skeletal development |
| FMOD | Fibromodulin | 3.04E-05 | 6.97 | 1q32 | Transforming growth factor beta receptor complex assembly |
| ADAM28 | A disintegrin and metalloproteinase domain 28 | 0.000499 | 3.83 | 8p21.2 | Proteolysis and peptidolysis |
| CHST3 | Carbohydrate (chondroitin 6) sulfotransferase 3 | 8.23E-07 | 6.27 | 10q22.1 | Chondroitin sulfate biosynthesis |
| Genes expressed specifically in chordomas | |||||
| KRT19 | Keratin 19 | 6.39E-16 | 1070.53 | 17q21.2 | Epidermis development |
| T | T, brachyury | 2.68E-19 | 79.79 | 6q27 | Mesoderm development |
| KRT18 | Keratin 18 | 6.96E-11 | 51.70 | 12q13 | Morphogenesis |
| KRT8 | Keratin 8 | 5.07E-15 | 29.70 | 12q13 | Cytoskeleton organization and biogenesis |
| ITGA3 | Integrin, alpha 3 | 1.84E-06 | 16.56 | 17q21.33 | Cell-matrix adhesion |
| KRT15 | Keratin 15 | 1.31E-10 | 15.94 | 17q21.2 | Epidermis development |
| CD24 | CD24 antigen | 0.000661 | 26.53 | 6q21 | Humoral immune response |
| DST | Dystonin | 1.52E-08 | 23.38 | 6p12-p11 | Cytoskeleton organization |
| EGF | Epidermal growth factor | 1.39E-06 | 10.57 | 4q25 | Positive regulation of cell proliferation |
| KRT13 | Keratin 13 | 9.26E-05 | 7.86 | 17q12-q21.2 | Epidermis development |
| SDC4 | Syndecan 4 | 0.000207 | 4.36 | 20q12 | Intracellular signaling |
| DDR1 | Discoidin domain receptor family, member 1 | 1.36E-07 | 4.11 | 6p21.3 | Transmembrane receptor protein tyrosine kinase signaling pathway |
| Genes expressed specifically in chondrosarcomas | |||||
| COL11A2 | Collagen, type XI, alpha 2 | 1.38E-23 | 261.31 | 6p21.3 | Skeletal development |
| COL9A1 | Collagen, type IX, alpha 1 | 1.91E-22 | 110.11 | 6q12-q14 | Phosphate transport |
| CHAD | Chondroadherin | 5.77E-20 | 31.16 | 17q21.33 | Regulation of cell growth |
| MMP3 | Matrix metalloproteinase 3 | 1.36E-14 | 10.53 | 11q22.3 | Collagen catabolism |
| COMP | Cartilage oligomeric matrix protein | 4.30E-15 | 10.48 | 19p13.1 | Extracellular matrix |
| HAPLN1 | Cartilage linking protein 1 | 2.73E-17 | 20.35 | 5q14.3 | Cell adhesion |
| MATN1 | Matrilin 1, cartilage matrix protein | 1.14E-09 | 16.16 | 1p35 | Cartilage condensation |
| MMP13 | Matrix metalloproteinase 13 | 2.47E-17 | 4.83 | 11q22.3 | Extracellular matrix |
| PTHR1 | Parathyroid hormone receptor 1 | 0.000251 | 3.53 | 3p22-p21.1 | Skeletal development |