DNA Copy Number Variation and Gene Expression Analyses Reveal the Implication of Specific Oncogenes and Genes in GBM

REFERENCES

• Schwartzbaum J. A., Fisher J. L., Aldape K. D., Wrensch M. Epidemiology and molecular pathology of glioma. Nat Clin Pract Neurol 2006; 2: 494–503, quiz 491 p following 516
   PubMedGoogle Scholar
• Louis D. N., Ohgaki H., Wiestler O. D., Cavenee W. K., Burger P. C., Jouvet A., Scheithauer B. W., Kleihues P. The 2007 WHO classification of tumours of the central nervous system. Acta Neuropathol 2007; 114: 97–109
   PubMed Web of Science ®Google Scholar
• Gudinaviciene I., Pranys D., Juozaityte E. Impact of morphology and biology on the prognosis of patients with gliomas. Medicina (Kaunas) 2004; 40: 112–120
   PubMedGoogle Scholar
• Margareto J., Leis O., Larrarte E., Idoate M. A., Carrasco A., Lafuente J. V. Gene expression profiling of human gliomas reveals differences between GBM and LGA related to energy metabolism and notch signaling pathways. J Mol Neurosci 2007; 32: 53–63
   PubMed Web of Science ®Google Scholar
• Wolf M., Mousses S., Hautaniemi S., Karhu R., Huusko P., Allinen M., Elkahloun A., Monni O., Chen Y., Kallioniemi A., Kallioniemi O. P. High-resolution analysis of gene copy number alterations in human prostate cancer using CGH on cDNA microarrays: impact of copy number on gene expression. Neoplasia 2004; 6: 240–247
   PubMed Web of Science ®Google Scholar
• Ruano Y., Mollejo M., Ribalta T., Fiano C., Camacho F. I., Gomez E., de Lope A. R., Hernandez-Moneo J. L., Martinez P., Melendez B. Identification of novel candidate target genes in amplicons of glioblastoma multiforme tumors detected by expression and CGH microarray profiling. Mol Cancer 2006; 5: 39
   PubMed Web of Science ®Google Scholar
• Burton E. C., Lamborn K. R., Feuerstein B. G., Prados M., Scott J., Forsyth P., Passe S., Jenkins R. B., Aldape K. D. Genetic aberrations defined by comparative genomic hybridization distinguish long-term from typical survivors of glioblastoma. Cancer Res 2002; 62: 6205–6210
   PubMed Web of Science ®Google Scholar
• Inda M. M., Fan X., Munoz J., Perot C., Fauvet D., Danglot G., Palacio A., Madero P., Zazpe I., Portillo E., Tunon T., Martinez-Penuela J. M., Alfaro J., Eiras J., Bernheim A., Castresana J. S. Chromosomal abnormalities in human glioblastomas: gain in chromosome 7p correlating with loss in chromosome 10q. Mol Carcinog 2003; 36: 6–14
   PubMed Web of Science ®Google Scholar
• Saigusa K., Hashimoto N., Tsuda H., Yokoi S., Maruno M., Yoshimine T., Aoyagi M., Ohno K., Imoto I., Inazawa J. Overexpressed Skp2 within 5p amplification detected by array-based comparative genomic hybridization is associated with poor prognosis of glioblastomas. Cancer Sci 2005; 96: 676–683
   PubMed Web of Science ®Google Scholar
• Diskin S. J., Eck T., Greshock J., Mosse Y. P., Naylor T., Stoeckert C. J., Jr., Weber B. L., Maris J. M., Grant G. R. STAC: a method for testing the significance of DNA copy number aberrations across multiple array-CGH experiments. Genome Res 2006; 16: 1149–1158
   PubMed Web of Science ®Google Scholar
• Nemeth J. A., Nakada M. T., Trikha M., Lang Z., Gordon M. S., Jayson G. C., Corringham R., Prabhakar U., Davis H. M., Beckman R. A. Alpha-v integrins as therapeutic targets in oncology. Cancer Invest 2007; 25: 632–646
   PubMed Web of Science ®Google Scholar
• Hsu A. R., Veeravagu A., Cai W., Hou L. C., Tse V., Chen X. Integrin alpha (v)beta (3) antagonists for anti-angiogenic cancer treatment. Recent Patents Anticancer Drug Discov 2007; 2: 143–158
   PubMed Web of Science ®Google Scholar
• Mischel P. S., Cloughesy T. F., Nelson S. F. DNA-microarray analysis of brain cancer: molecular classification for therapy. Nat Rev Neurosci 2004; 5: 782–792
   PubMed Web of Science ®Google Scholar
• Martins C. M., Fernandes B. F., Antecka E., Di Cesare S., Mansure J. J., Marshall J. C., Burnier M. N., Jr. Expression of the metastasis suppressor gene KISS1 in uveal melanoma. Eye 2008; 22(5)707–711, May
   PubMed Web of Science ®Google Scholar
• Guan-Zhen Y., Ying C., Can-Rong N., Guo-Dong W., Jian-Xin Q., Jie-Jun W. Reduced protein expression of metastasis-related genes (nm23, KISS1, KAI1 and p53) in lymph node and liver metastases of gastric cancer. Int J Exp Pathol 2007; 88: 175–183
   PubMed Web of Science ®Google Scholar
• Ohta S., Lai E. W., Pang A. L., Brouwers F. M., Chan W. Y., Eisenhofer G., de Krijger R., Ksinantova L., Breza J., Blazicek P., Kvetnansky R., Wesley R. A., Pacak K. Downregulation of metastasis suppressor genes in malignant pheochromocytoma. Int J Cancer 2005; 114: 139–143
   PubMed Web of Science ®Google Scholar
• Goldberg S. F., Miele M. E., Hatta N., Takata M., Paquette-Straub C., Freedman L. P., Welch D. R. Melanoma metastasis suppression by chromosome 6: evidence for a pathway regulated by CRSP3 and TXNIP. Cancer Res 2003; 63: 432–440
   PubMed Web of Science ®Google Scholar
• Le Jan S., Le Meur N., Cazes A., Philippe J., Le Cunff M., Leger J., Corvol P., Germain S. Characterization of the expression of the hypoxia-induced genes neuritin, TXNIP and IGFBP3 in cancer. FEBS Lett 2006; 580: 3395–3400
   PubMed Web of Science ®Google Scholar
• Gaiano N., Fishell G. The role of notch in promoting glial and neural stem cell fates. Annu Rev Neurosci 2002; 25: 471–490
   PubMed Web of Science ®Google Scholar
• Gil-Benso R., Lopez-Gines C., Benito R., Lopez-Guerrero J. A., Callaghan R. C., Pellin A., Roldan P., Cerda-Nicolas M. Concurrent EGFR amplification and TP-53 mutation in glioblastomas. Clin Neuropathol 2007; 26: 224–231
   PubMed Web of Science ®Google Scholar
• Nigro J. M., Misra A., Zhang L., Smirnov I., Colman H., Griffin C., Ozburn N., Chen M., Pan E., Koul D., Yung W. K., Feuerstein B. G., Aldape K. D. Integrated array-comparative genomic hybridization and expression array profiles identify clinically relevant molecular subtypes of glioblastoma. Cancer Res 2005; 65: 1678–1686
   PubMed Web of Science ®Google Scholar
• Jozwiak J., Kotulska K., Grajkowska W., Jozwiak S., Zalewski W., Oldak M., Lojek M., Rainko K., Maksym R., Lazarczyk M., Skopinski P., Wlodarski P. Upregulation of the WNT pathway in tuberous sclerosis-associated subependymal giant cell astrocytomas. Brain Dev 2007; 29: 273–280
   PubMed Web of Science ®Google Scholar
• Yokota N., Nishizawa S., Ohta S., Date H., Sugimura H., Namba H., Maekawa M. Role of Wnt pathway in medulloblastoma oncogenesis. Int J Cancer 2002; 101: 198–201
   PubMed Web of Science ®Google Scholar
• Christner P. J., Ayitey S. Extracellular matrix containing mutated fibrillin-1 (Fbn1) down regulates Col1a1, Col1a2, Col3a1, Col5a1, and Col5a2 mRNA levels in Tsk/+ and Tsk/Tsk embryonic fibroblasts. Amino Acids 2006; 30: 445–451
   PubMed Web of Science ®Google Scholar
• Rocha R. L., Hilsenbeck S. G., Jackson J. G., Lee A. V., Figueroa J. A., Yee D. Correlation of insulin-like growth factor-binding protein-3 messenger RNA with protein expression in primary breast cancer tissues: detection of higher levels in tumors with poor prognostic features. J Natl Cancer Inst 1996; 88: 601–606
   PubMed Web of Science ®Google Scholar
• Reichardt W., Jung V., Brunner C., Klein A., Wemmert S., Romeike B. F., Zang K. D., Urbschat S. The putative serine/threonine kinase gene STK15 on chromosome 20q13.2 is amplified in human gliomas. Oncol Rep 2003; 10: 1275–1279
   PubMed Web of Science ®Google Scholar
• Nowee M. E., Dorsman J. C., Piek J. M., Kosma V. M., Hamalainen K., Verheijen R. H., van Diest P. J. HER-2/neu and p27Kip1 in progression of Fallopian tube carcinoma: an immunohistochemical and array comparative genomic hybridization study. Histopathology 2007; 51: 666–673
   PubMed Web of Science ®Google Scholar
• Zamostiano R., Pinhasov A., Gelber E., Steingart R. A., Seroussi E., Giladi E., Bassan M., Wollman Y., Eyre H. J., Mulley J. C., Brenneman D. E., Gozes I. Cloning and characterization of the human activity-dependent neuroprotective protein. J Biol Chem 2001; 276: 708–714
   PubMed Web of Science ®Google Scholar
• Zhou Y. H., Hess K. R., Liu L., Linskey M. E., Yung W. K. Modeling prognosis for patients with malignant astrocytic gliomas: quantifying the expression of multiple genetic markers and clinical variables. Neuro-Oncol 2005; 7: 485–494
   PubMed Web of Science ®Google Scholar
• Reifenberger G., Ichimura K., Reifenberger J., Elkahloun A. G., Meltzer P. S., Collins V. P. Refined mapping of 12q13-q15 amplicons in human malignant gliomas suggests CDK4/SAS and MDM2 as independent amplification targets. Cancer Res 1996; 56: 5141–5145
   PubMed Web of Science ®Google Scholar
• Rollbrocker B., Waha A., Louis D. N., Wiestler O. D., von Deimling A. Amplification of the cyclin-dependent kinase 4 (CDK4) gene is associated with high cdk4 protein levels in glioblastoma multiforme. Acta Neuropathol 1996; 92: 70–74
   PubMed Web of Science ®Google Scholar
• Darwish H., Cho J. M., Loignon M., Alaoui-Jamali M. A. Overexpression of SERTAD3, a putative oncogene located within the 19q13 amplicon, induces E2F activity and promotes tumor growth. Oncogene 2007; 26: 4319–4328
   PubMed Web of Science ®Google Scholar
• Nakahara S., Raz A. Biological modulation by lectins and their ligands in tumor progression and metastasis. Anticancer Agents Med Chem 2008; 8: 22–36
   PubMed Web of Science ®Google Scholar
• Langbein S., Brade J., Badawi J. K., Hatzinger M., Kaltner H., Lensch M., Specht K., Andre S., Brinck U., Alken P., Gabius H. J. Gene-expression signature of adhesion/growth-regulatory tissue lectins (galectins) in transitional cell cancer and its prognostic relevance. Histopathology 2007; 51: 681–690
   PubMed Web of Science ®Google Scholar
• Garcia J. A. HIFing the brakes: therapeutic opportunities for treatment of human malignancies. Sci STKE 2006; 2006: pe25
   PubMedGoogle Scholar
• Li Q. F., Wang X. R., Yang Y. W., Lin H. Hypoxia upregulates hypoxia inducible factor (HIF)-3alpha expression in lung epithelial cells: characterization and comparison with HIF-1alpha. Cell Res 2006; 16: 548–558
   PubMed Web of Science ®Google Scholar
• Ertekin-Taner N. Genetics of Alzheimer's disease: a centennial review. Neurol Clin 2007; 25: 611–667, v
   PubMed Web of Science ®Google Scholar
• Bach-Ngohou K., Nazih H., Nazih-Sanderson F., Zair Y., Le Carrer D., Krempf M., Bard J. M. Negative and independent influence of apolipoprotein E on C-reactive protein (CRP) concentration in obese adults. Potential anti-inflammatory role of apoE in vivo. Int J Obes Relat Metab Disord 2001; 25: 1752–1758
   PubMed Web of Science ®Google Scholar
• Nicoll J. A., Zunarelli E., Rampling R., Murray L. S., Papanastassiou V., Stewart J. Involvement of apolipoprotein E in glioblastoma: immunohistochemistry and clinical outcome. Neuroreport 2003; 14: 1923–1926
   PubMed Web of Science ®Google Scholar
• Mahadevan D., Cooke L., Riley C., Swart R., Simons B., Della Croce K., Wisner L., Iorio M., Shakalya K., Garewal H., Nagle R., Bearss D. A novel tyrosine kinase switch is a mechanism of imatinib resistance in gastrointestinal stromal tumors. Oncogene 2007; 26: 3909–3919
   PubMed Web of Science ®Google Scholar
• Sawabu T., Seno H., Kawashima T., Fukuda A., Uenoyama Y., Kawada M., Kanda N., Sekikawa A., Fukui H., Yanagita M., Yoshibayashi H., Satoh S., Sakai Y., Nakano T., Chiba T. Growth arrest-specific gene 6 and Axl signaling enhances gastric cancer cell survival via Akt pathway. Mol Carcinog 2007; 46: 155–164
   PubMed Web of Science ®Google Scholar
• Hutterer M., Knyazev P., Abate A., Reschke M., Maier H., Stefanova N., Knyazeva T., Barbieri V., Reindl M., Muigg A., Kostron H., Stockhammer G., Ullrich A. Axl and growth arrest-specific gene 6 are frequently overexpressed in human gliomas and predict poor prognosis in patients with glioblastoma multiforme. Clin Cancer Res 2008; 14: 130–138
   PubMed Web of Science ®Google Scholar
• Balesaria S., Brock C., Bower M., Clark J., Nicholson S. K., Lewis P., de Sanctis S., Evans H., Peterson D., Mendoza N., Glaser M. G., Newlands E. S., Fisher R. A. Loss of chromosome 10 is an independent prognostic factor in high-grade gliomas. Br J Cancer 1999; 81: 1371–1377
   PubMed Web of Science ®Google Scholar