Table 2

Genes induced or repressed in glioblastomas compared with normal brain tissue

SAGE tag sequenceGene symbol (name)aAccession No.bPubMed IDcFold changed
Metaplasiae
 GTATGGGCCCCHI3L1 (cartilage glycoprotein-39)M809278245017Inc 82×
 TGGGATTCCCCHIT1 (YKL-39 precursor)U498358702629Inc 17×
 AGTGGTGGCTFMOD (fibromodulin)U052919480886Inc 16×
 GGAAGCTAAGOSF2 (osteoblast-specific factor 2)D136668363580Inc 10×
Cell cycle regulators
 GAAGGAAGAACDK4 (cyclin-dependent kinase 4)M145058259215Inc 33×
 ATCTGCTCGGNMB (neuromedin B)M215519178908Inc 14×
 GACTCGCCCAMCM5 (P1-cdc46)X747958265339Inc 11×
 ATCCCTTCCCPNUTL1 (peanut-like 1/CDCREL)Y115939385360Red 9×
Transcription factors
 CCCAGTAAGACSRP2 (cysteine and glycine-rich protein 2)U576469286703Inc 10×
 GTCCACACAGZNF230 (Zinc finger protein/FDZF2)U950442499084Red 8×
 CTCACTTTTTCEBPD (nuclear factor IL6 β)M836671741402Inc 6×
 AACCACTGCTID3 (HLH 1R21/heir1)X691118437843Inc 5×
 GGGCAGGCGT(Transcription factor ETR101)M628312061303Inc 5×
 ACCCACGTCAJUNB (jun B proto-oncogene)X513452513129Inc 5×
Angiogenesis
 TTAAACTTAACXCR4 (neuropeptide Y receptor Y3)L067979634237Inc 15×
 AGATGGTATATIMP4 (tissue inhibitor of metalloproteinase 4)U764569791730Inc 13×
 AAAGAGAAAGADM (adrenomedullin)D148749808778Inc 11×
 ATGTGAAGAGSPARC (osteonectin)J030408773299Inc 10×
 ATCTTGTTACFN1 (fibronectin-1)X027616188316Inc 8×
 TTTCCAATCTVEGF (vascular endothelial growth factor)AF0247102479986Inc 5×
Neurotransmission
 TACCCTTCTGSYT1 (synaptotagmin I)U199217624059Red 24×
 TGGTTCACATNPTX1 (neuronal pentraxin1)U618498884281Red 13×
 GCCCCAGCTGGRIN 1 (NMDA receptor subunit)L132667685113Red 13×
 CTTCAGGACCSTXBP1 (Unc-18 homolog)D638519545644Red 13×
 GTGCAGTGAASYP (synaptophysin/p38)X063897903586Red 12×
 TGTCTGTTTGZNT3 (zinc transporter3)U760108962159Red 11×
 TCCTGGTGCGSYNGR1 (synaptogyrin 1a)AJ0023059760194Red 9×
 TTCCGACTGCSYNGR3 (synaptogyrin3)AJ0023099760194Red 7×
 TCAATCAAGAYWHAH (14-3-3 eta)L204228561965Red 7×
Immune related
 GCAAAACAACLTF (lactoferrin)M931507672721Inc 56×
 TGCAGCACGAHLA-C (MHC Class I HLA C×52)M219632843461Inc 43×
 TTCTGTGCTGC1R (complement C1r)X047013030286Inc 28×
 AATAGAAATTSPP1 (osteopontin)J047659916729Inc 12×
 CATCTGTACTHLA-DRB1 (MHC Class II HLA DR-β)M204293259543Inc 11×
 GTTCACATTACD74 (HLA-DR invariant chain p33)X004976586420Inc 9×
 CTCCCCTGCCCAPG (macrophage capping protein)M943451322908Inc 8×
Metabolism
 GCCAACAACGNNMT (nicotinamide N-methyltransferase)U080218575745Inc 24×
 GTCAACAGTAMRP3 (multidrug resistance protein3)AB0108879738950Inc 18×
 AGCACTTACAAPOC2 (apolipoprotein C-II)M29844565877Inc 16×
 TTCTAACATAATP1B1 (Na+K+ ATPase β-subunit)X037473008098Red 14×
 AAATAAAGAAMGST1 (microsomal glutathione S-transferase)J037463372534Inc 12×
 CACGGACACGGOT1 (cytosolic aspartate aminotransferase)M374001974457Red 11×
 TTTGAAATGASAT (spermidine/spermine N1-acetyltransferase)M776938500690Inc 9×
Previously reported as overexpressed in glioblastoma
 GAAGGAAGAACDK4 (cyclin-dependent kinase4)M145058044775Inc 33×
 AAAGAGAAAGADM (adrenomedullin)D148749396051Inc 11×
 TCTTGATTTAA2M (α-2 macroglobulin)M365011371755Inc 10×
 TCCAAATCGAVIM (vimentin)M252463020864Inc 9×
 ATCTTGTTACFN1 (fibronectin-1)X027613974826Inc 8×
 TTTCCAATCTVEGF (vascular endothelial growth factor)AF0247101279432Inc 5×
 CGTGGGTGGGHMOX1 (heme oxygenase)X069858694803Inc 5×
  • a HUGO/GDB nomenclature committee approved symbols for individual genes. Each gene sequence had a poly-A signal and/or poly-A tail and was matched to the SAGE tag.

  • b The GenBank accession number was used to identify the gene and contains the differentially expressed tag.

  • c The PubMed ID is the reference used to support the functional classification or a previous report of elevated expression in glioblastoma (bottom category). PubMed ID can be used to retrieve a reference supporting the functional classification by searching Medline with the indicated number at http://www.ncbi.nlm.nih.gov/PubMed/medline.html.

  • d The fold increase (Inc) or reduced (Red) gene expression was calculated by normalizing the total number of tags in the two SAGE libraries and taking the ratio of the tags in tumor:normal (Inc) or normal:tumor (Red).

  • e A review of publications and databases on each gene was used to group genes with potentially similar function.