Table 1.
Genes upregulated in osteoblastic versus non-osteoblastic osteosarcomas
| Gene symbol | Mean (A) | Mean (B) | Fold change (A/B) | Gene title |
|---|---|---|---|---|
| TMSL8 | 3,403 | 612 | 5.56 | Thymosin-like 8 |
| PTPRZ1 | 1,680 | 430 | 3.90 | Protein tyrosine phosphatase, receptor-type |
| LOX | 4,386 | 790 | 5.55 | Lysyl oxidase |
| ANGPT1 | 1,989 | 409 | 4.86 | Angiopoietin 1 |
| HIST1H1C | 2,442 | 492 | 4.97 | Histone 1, H1c |
| DKK1 | 2,386 | 606 | 3.94 | Dickkopf homolog 1 (Xenopus laevis) |
| CYFIP2 | 3,521 | 978 | 3.60 | Cytoplasmic FMR1 interacting protein 2 |
| BAMBI | 6,453 | 1,865 | 3.46 | BMP and activin membrane-bound inhibitor homolog |
| HEY1 | 4,315 | 1,203 | 3.59 | Hairy/enhancer-of-split related with YRPW motif 1 |
| CTPS | 1,314 | 453 | 2.90 | CTP synthase |
| SEC14L1 | 391 | 123 | 3.17 | SEC14-like 1 (S. cerevisiae) |
| IMP-3 | 327 | 102 | 3.20 | IGF-II mRNA-binding protein 3 |
| TIMM13 | 1,998 | 634 | 3.15 | Translocase of inner mitochondrial membrane13 homolog |
| SC4MOL | 1,214 | 428 | 2.84 | Sterol-C4-methyl oxidase-like |
| C1orf41 | 748 | 241 | 3.11 | Chromosome 1 open reading frame 41 |
| RRAS2 | 767 | 256 | 3.00 | Related RAS viral (r-ras) oncogene homolog 2 |
| UCHL1 | 3,664 | 1,213 | 3.02 | Ubiquitin carboxyl-terminal esterase L1 |
| HOMER2 | 870 | 290 | 3.00 | Homer homolog 2 (Drosophila) |
| UBE2S | 2,351 | 821 | 2.86 | Ubiquitin-conjugating enzyme E2S |
| RRAS2 | 291 | 103 | 2.83 | Related RAS viral (r-ras) oncogene homolog 2 |
| PGF | 869 | 321 | 2.71 | Placental growth factor |
| FDX1 | 2,028 | 705 | 2.88 | Ferredoxin 1 |
| IMP-3 | 253 | 87 | 2.90 | IGF-II mRNA-binding protein 3 |
| CETN3 | 631 | 243 | 2.59 | Centrin, EF-hand protein, 3 |
| GGH | 1,231 | 437 | 2.82 | Gamma-glutamyl hydrolase |
| GNAI1 | 423 | 161 | 2.63 | Guanine nucleotide binding protein (G protein) |
| CD24 | 1,850 | 767 | 2.41 | CD24 antigen |
| SATB2 | 180 | 71 | 2.54 | SATB family member 2 |
| TM9SF4 | 585 | 223 | 2.63 | Transmembrane 9 superfamily protein member 4 |
| CD2AP | 406 | 145 | 2.79 | CD2-associated protein |
| TREX2 /IP1 | 320 | 114 | 2.80 | Three prime repair exonuclease 2 |
| DDX39 | 1,150 | 453 | 2.54 | DEAD (Asp-Glu-Ala-Asp) box polypeptide 39 |
| YKT6 | 362 | 143 | 2.52 | SNARE protein Ykt6 |
| CYCS | 6,205 | 2,743 | 2.26 | Cytochrome c, somatic |
| PIGF | 453 | 186 | 2.44 | Phosphatidylinositol glycan, class F |
| SCHIP1 | 562 | 239 | 2.36 | Schwannomin interacting protein 1 |
| EIF5A | 1,766 | 765 | 2.31 | Eukaryotic translation initiation factor 5A |
| AK2 | 1,083 | 469 | 2.31 | Adenylate kinase 2 |
| UST | 430 | 197 | 2.18 | Uronyl-2-sulfotransferase |
| RPA3 | 2,553 | 1,108 | 2.30 | Replication protein A3, 14 kDa |
| HIST2H2AA | 1,130 | 480 | 2.35 | Histone 2, H2aa |
| LEPROTL1 | 643 | 285 | 2.25 | Leptin receptor overlapping transcript-like 1 |
| MRPL22 | 952 | 394 | 2.42 | Mitochondrial ribosomal protein L22 |
| POLR2K | 1,483 | 628 | 2.36 | Polymerase (RNA) II (DNA directed) |
| FLJ20364 | 366 | 163 | 2.25 | Hypothetical protein FLJ20364 |
| CDC42EP3 | 984 | 463 | 2.13 | CDC42 effector protein (Rho GTPase binding) 3 |
| SNX4 | 264 | 116 | 2.28 | Sorting nexin 4 |
| HIST3H2A | 1,145 | 524 | 2.18 | Histone 3, H2a |
| STK17A | 692 | 318 | 2.18 | Serine/threonine kinase 17a (apoptosis-inducing) |
| SDC2 | 4,912 | 2,350 | 2.09 | Syndecan 2 |
| MCM7 | 846 | 363 | 2.33 | MCM7 minichromosome maintenance deficient 7 |
| MRPS12 | 667 | 308 | 2.17 | Mitochondrial ribosomal protein S12 |
| PTDSR | 347 | 159 | 2.19 | Phosphatidylserine receptor |
| LSM5 | 1,092 | 522 | 2.09 | LSM5 homolog, U6 small nuclear RNA associated |
| BCAP31 | 3,018 | 1,350 | 2.24 | B-cell receptor-associated protein 31 |
| DPM3 | 814 | 378 | 2.16 | Dolichyl-phosphate mannosyltransferase polypeptide 3 |
| C14orf156 | 1,924 | 893 | 2.15 | Chromosome 14 open reading frame 156 |
| ACYP1 | 342 | 166 | 2.06 | Acylphosphatase 1, erythrocyte (common) type |
| PHB | 1,214 | 566 | 2.15 | Prohibitin |
| STOML2 | 1,086 | 496 | 2.19 | Stomatin (EPB72)-like 2 |
| MRPS17 | 887 | 426 | 2.08 | Mitochondrial ribosomal protein S17 |
| PCCB | 681 | 338 | 2.01 | Propionyl Coenzyme A carboxylase, beta polypeptide |
| C14orf109 | 342 | 160 | 2.14 | Chromosome 14 open reading frame 109 |
| EIF3S9 | 814 | 388 | 2.10 | Eukaryotic translation initiation factor 3 |
| KIAA0555 | 323 | 158 | 2.05 | Jak and microtubule interacting protein 2 |
| MBD2 | 1,114 | 549 | 2.03 | Methyl-CpG binding domain protein 2 |
| HDDC2 | 1,785 | 880 | 2.03 | HD domain containing 2 |
| VRK1 | 517 | 259 | 2.00 | Vaccinia related kinase 1 |
| DERL1 | 1,509 | 736 | 2.05 | Der1-like domain family, member 1 |
| DHPS | 468 | 228 | 2.05 | Deoxyhypusine synthase |
| BOLA2 | 1,132 | 553 | 2.05 | BolA-like 2 (E. coli) |
| EIF5 | 821 | 411 | 2.00 | Eukaryotic translation initiation factor 5 |
| TSPAN6 | 613 | 304 | 2.02 | Tetraspanin 6 |
| HOXB7 | 724 | 357 | 2.02 | Homeo box B7 |
| TUSC2 | 534 | 266 | 2.01 | Tumor suppressor candidate 2 |
Selected genes with increased expression in osteoblastic versus non-osteoblastic osteosarcoma samples
Genes are ranked in order of fold change and are listed with their gene symbol ID, mean expression osteoblastic osteosarcoma patients (mean A) and non-osteoblastic osteosarcoma patients (mean B), and with their gene description