Table 1.

Top 100 Primary Glioblastoma-Associated Genes Expressed at Higher Levels Compared with Normal Brain Tissue

GeneSymbolFold changePGeneSymbolFold changeP
Collagen type III, α1COL3A118.470.000237Sushi-repeat-containing protein, X chromosomeSRPX4.160
Carbonic anhydrase III, muscle specificCA313.660.006805Vascular endothelial growth factorVEGF4.150.000009
Insulin-like growth factor binding protein 2, 36 kDaIGFBP210.790Chondroitin sulfate proteoglycan 2 (versican)CSPG24.150
Coagulation factor II (thrombin) receptorF2R9.080Insulin-like growth factor–binding protein 3IGFBP34.10.000053
Osteoblast-specific factor 2 (fasciclin I-like)POSTN8.650.000528KDEL endoplasmic reticulum protein retention receptor 2KDELR24.070
T-lymphokine-activated killer cell cell-originated protein kinasePBK7.420Insulin-like growth factor–binding protein 5IGFBP54.060
Epidermal growth factor receptorEGFR7.040.000005MHC class II, DRαHLA-DRA4.040
Transforming growth factor-β induced, 68 kDaTGFBI6.810.000002Macrophage scavenger receptor 1MSR14.040
Tenascin C (hexabrachion)TNC6.80CD99 antigenCD9940
Collagen type IV, α1COL4A16.780MHC class II, DRβ4HLA-DRB43.990
Tissue inhibitor of matrix metalloproteinase 1TIMP16.50MHC class II, DRβ1HLA-DRB13.980
Annexin A1ANXA16.160Chemokine (C-X-C motif) receptor 4CXCR43.980.000001
Centromere protein F, 350/400 kDa (mitosin)CENPF6.150.000005Caveolin 1, caveolae protein, 22 kDaCAV13.940.000002
Sex-determining region Y (SRY)-box 11SOX115.990.000057Protein S (α)PROS13.930
Collagen type I, α2COL1A25.850.000301Thymidylate synthetaseTYMS3.890
Fibronectin 1FN15.840Serine (or cysteine) proteinase inhibitor, clade A, member 3SERPINA33.840
Vascular cell adhesion molecule 1VCAM15.570.000003Complement component 5 receptor 1 (C5a ligand)C5R13.820.000083
Collagen type IV, α2COL4A25.360Regulator of G-protein signaling 1RGS13.80.000157
Chromosome 8 open reading frame 4C8orf45.320.000196MHC class II, DRαHLA-DRA3.770
FLJ20933 fis, clone ADSE013885.30.001651Peroxiredoxin 4PRDX43.760
Chemokine (C-C motif) ligand 3CCL35.290.000347Chitinase 3–like 1 (cartilage glycoprotein-39)CHI3L13.760.000005
Epithelial membrane protein 1EMP15.270ESTs, weakly similar to cytokine receptor-like factor 23.750
Sex-determining region Y (SRY)-box 4SOX45.270MHC class II, DRβ6HLA-DRB63.750
Collagen type VI, α2COL6A25.20.002623KIAA0101 gene productKIAA01013.740
Hypothetical protein FLJ23468MLF1IP5.170Integrin, β2 [antigen CD18 (p95)]ITGB23.740
Matrix G1a proteinMGP5.040.000002Interleukin-8IL83.730.002226
CD163 antigenCD1635.030.000009Matrix metalloproteinase-9MMP93.730.004374
Stabilin 1STAB14.930Pre-B-cell colony-enhancing factorPBEF13.730.000045
Complement component 1, R subcomponentC1R4.880Complement component 3C33.720
Laminin, β1LAMB14.870.000052MHC class II, DQβ1HLA-DQB13.70
Annexin A2ANXA24.690EGF-containing fibulin-like extracellular matrix protein 1EFEMP13.690.000002
CD14 antigenCD144.670MHC class II, DQα1HLA-DQA13.690.000016
CD44 antigenCD444.610Vesicle-associated membrane protein 8 (endobrevin)VAMP83.670
Ribosomal protein, large P2RPLP24.580v-maf musculoaponeurotic fibrosarcoma oncogene homologue BMAFB3.670
Secreted protein acidic and rich in cysteine (osteonectin)SPARC4.560Hematopoietic cell-specific Lyn substrate 1HCLS13.650
Cysteine and glycine-rich protein 2CSRP24.530Complement component 1, Q subcomponent, β polypeptideC1QB3.640
Thymosin, β, identified in neuroblastoma cellsTMSL84.490.000158Neuromedin BNMB3.640
Nucleolar protein ANKTNUSAP14.470MHC class II, DMαHLA-DMA3.630
Epithelial membrane protein 3EMP34.440Glycoprotein (transmembrane) nmbGPNMB3.620
Sex-determining region Y (SRY)-box 2SOX24.310Zinc finger protein 36, C3H type-like 2ZFP36L23.610
MHC class II, DP β1HLA-DPB14.30Sec61γSEC61G3.60
Growth differentiation factor 8GDF84.290.004637CD24 antigen (small cell lung carcinoma cluster 4 antigen)CD243.590.000115
NestinNES4.280δ-like 3 (Drosophila)DLL33.580.00054
Hypothetical protein FLJ20716FAM70A4.280High-mobility group box 2HMGB23.570
Lung type I cell membrane-associated glycoproteinPDPN4.280Inhibitor of DNA binding 3ID33.560
Complement component 1, q subcomponent, receptor 1C1QR14.230Transcriptional coactivator with PDZ-binding motif (TAZ)WWTR13.550
Apolipoprotein C-IAPOC14.220Heme oxygenase (decycling) 1HMOX13.550.000044
RNA-binding motif protein 3RBM44.20Fatty acid–binding protein 7, brainFABP73.530.000002
Chondroitin sulfate proteoglycan BEHAB/brevicanBCAN4.20Connective tissue growth factorCTGF3.530.000014
SMC4 structural maintenance of chromosomes 4-like 1SMC4L14.170Retinitis pigmentosa 2 (X-linked recessive)RP23.510
  • NOTE: Analysis was based on a cutoff of a 2.5-fold increase in relative expression (P < 0.05) in primary glioblastoma compared with normal brain tissue.