Lung Cancer
Volume 55, Issue 1 , Pages 43-51 , January 2007

Comparative genomic hybridization array analysis and real time PCR reveals genomic alterations in squamous cell carcinomas of the lung

  • Yong-Woo Choi

      Affiliations

    • Department of Anesthesiology, St. Mary's Hospital, The Catholic University, Seoul, South Korea
    • ,
  • Jin Soo Choi

      Affiliations

    • Catholic Neuroscience Center, The Catholic University, Seoul, South Korea
    • ,
  • Long Tai Zheng

      Affiliations

    • Department of Pharmacology College of Medicine, Kyung Hee University, Seoul, South Korea
    • ,
  • Yun Jeong Lim

      Affiliations

    • Department of Internal Medicine, Dongguk University International Hospital, Dongguk University College of Medicine, Goyang, South Korea
    • ,
  • Hyoung Kyu Yoon

      Affiliations

    • Division of Pulmonary and Critical Care, Department of Medicine, College of Medicine, Catholic University, Seoul, South Korea
    • ,
  • Yeul Hong Kim

      Affiliations

    • Department of Internal Medicine, Korea University Medical Center, Anam Hospital, Seoul, South Korea
    • ,
  • Young-Pil Wang

      Affiliations

    • Department of Thoracic Surgery, The Catholic University, Seoul, South Korea
    • ,
  • Young Lim

      Affiliations

    • Department of Occupational and Environmental Medicine, St. Mary's Hospital, The Catholic University, Seoul, South Korea
    • Corresponding Author InformationCorresponding author. Tel.: +82 2 3779 1401; fax: +82 2 3481 7602.

Received 1 June 2006 ,Revised 7 September 2006 ,Accepted 20 September 2006.

References 

  1. Sy SM, Wong N, Lee TW, Tse G, Mok TS, Fan B, et al. Distinct patterns of genetic alterations in adenocarcinoma and squamous cell carcinoma of the lung. Eur J Cancer. 2004;40:1082–1094
  2. An Q, Pacyna-Gengelbach M, Schlüns K, Deutschmann N, Guo S, Gao Y, et al. Identification of differentially expressed genes in immortalized human bronchial epithelial cell line as a model for in vitro study of lung carcinogenesis. Int J Cancer. 2003;103:194–204
  3. Chujo M, Noguchi T, Miura T, Arinaga M, Uchida Y, Tagawa Y. Comparative genomic hybridization analysis detected frequent overrepresentation of chromosome 3q in squamous cell carcinoma of the lung. Lung Cancer. 2002;38:23–29
  4. Mantripragada KK, Buckley PG, de Stahl TD, Dumanski JP. Genomic microarrays in the spotlight. Trends Genet. 2004;20:87–94
  5. Tonon G, Wong KK, Maulik G, Brennan C, Feng B, Zhang Y, et al. High-resolution genomic profiles of human lung cancer. Proc Natl Acad Sci USA. 2005;102:9625–9630
  6. Balsara BR, Testa JR. Chromosomal imbalances in human lung cancer. Oncogene. 2002;21:6877–6883
  7. Garnis C, Lockwood WW, Vucic E, Ge Y, Girard L, Minna JD, et al. High-resolution analysis of non-small cell lung cancer cell lines by whole genome tiling path array CGH. Int J Cancer. 2006;118:1556–1564
  8. Jiang F, Yin Z, Caraway NP, Li R, Katz RL. Genomic profiles in stage I primary non small cell lung cancer using comparative genomic hybridization analysis of cDNA microarrays. Neoplasia. 2004;6:623–635
  9. Wikman H, Nymark P, Väyrynen A, Jarmalaite S, Kallioniemi A, Salmenkivi K, et al. CDK4 is a probable target gene in a novel amplicon at 12q13.3-q14.1 in lung cancer. Genes Chromosomes Cancer. 2005;42:193–199
  10. Zhao X, Weir BA, LaFramboise T, Lin M, Beroukhim R, Garraway L, et al. Homozygous deletions and chromosome amplifications in human lung carcinomas revealed by single nucleotide polymorphism array analysis. Cancer Res. 2005;65:5561–5570
  11. Wong MP, Fung LF, Wang E, Chow WS, Chiu SW, Lam WK, et al. Chromosomal aberrations of primary lung adenocarcinomas in nonsmokers. Cancer. 2003;97:1263–1270
  12. Mao X, Orchard G, Lillington DM, Russel-Jones R, Young BD, Whittaker S. Genetic alterations in primary cutaneous CD30+ anaplastic large cell lymphoma. Genes Chromosomes Cancer. 2003;37:176–185
  13. Nakao K, Mehta KR, Fridlyand J, Moore DH, Jain AN, Lafuente A, et al. High-resolution analysis of DNA copy number alterations in colorectal cancer by array-based comparative genomic hybridization. Carcinogenesis. 2004;25:1345–1357
  14. Wessendorf S, Fritz B, Wrobel G, Nessling M, Lampel S, Goettel D, et al. Automated screening for genomic imbalances using matrix-based comparative genomic hybridization. Lab Invest. 2002;82:47–60
  15. Wang G, Brennan C, Rook M, Wolfe JL, Leo C, Chin L, et al. Balanced-PCR amplification allows unbiased identification of genomic copy changes in minute cell and tissue samples. Nucl Acids Res. 2004;32:76–85
  16. Morgan BL, Chao CR. The effects of hypoxia on growth cones in the ovine fetal brain. J Matern Fetal Neonatal Med. 2004;16:55–59
  17. Williams TD, Gensberg K, Minchin SD, Chipman JK. A DNA expression array to detect toxic stress response in European flounder (Platichthys flesus). Aquat Toxicol. 2003;65:141–157
  18. Lapuk A, Volik S, Vincent R, Chin K, Kuo WL, de Jong P, et al. Computational BAC clone contig assembly for comprehensive genome analysis. Genes Chromosomes Cancer. 2004;40:66–71
  19. Hurst CD, Fiegler H, Carr P, Williams S, Carter NP, Knowles MA. High-resolution analysis of genomic copy number alterations in bladder cancer by microarray-based comparative genomic hybridization. Oncogene. 2004;23:2250–2263
  20. Guillaud-Bataille M, Valent A, Soularue P, Perot C, Inda MM, Receveur A, et al. Detecting single DNA copy number variations in complex genomes using one nanogram of starting DNA and BAC-array CGH. Nucl Acids Res. 2004;32:112–120
  21. Smallwood PM, Munoz-Sanjuan I, Tong P, Macke JP, Hendry SHC, Gilbert DJ, et al. Fibroblast growth factor (FGF) homologous factors: new members of the FGF family implicated in nervous system development. Proc Nat Acad Sci USA. 1996;93:9850–9857
  22. Olsen SK, Garbi M, Zampieri N, Eliseenkova AV, Ornitz DM, Goldfarb M, et al. Fibroblast growth factor (FGF) homologous factors share structural but not functional homology with FGFs. J Biol Chem. 2003;278:34226–34236
  23. Munoz-Sanjuan I, Smallwood PM, Nathans J. Isoform diversity among fibroblast growth factor homologous factors is generated by alternative promoter usage and differential splicing. J Biol Chem. 2000;275:2589–2597
  24. Yokoi S, Yasui K, Lizasa T, Imoto I, Fujisawa T, Inazawa J. TERC identified as a probable target within the 3q26 amplicon that is detected frequently in non-small cell lung cancers. Clin Cancer Res. 2003;9:4705–4713
  25. Massion PP, Kuo WL, Stokoe D, Olshen AB, Treseler PA, Chin K, et al. Genomic copy number analysis of non-small cell lung cancer using array comparative genomic hybridization: implications of the phosphatidylinositol 3-kinase pathway. Cancer Res. 2002;62:3636–3640
  26. von Ahsen I, Rogalla P, Bullerdiek . J. Expression patterns of the LPP-HMGA2 fusion transcript in pulmonary chondroid hamartomas with t (3; 12) (q27 approximately 28; q14 approximately 15). Cancer Genet Cytogenet. 2005;163:68–70
  27. Lemke I, Rogalla P, Grundmann F, Kunze WP, Haupt R, Bullerdiek J. Expression of the HMGA2-LPP fusion transcript in only 1 of 61 karyotypically normal pulmonary chondroid hamartomas. Cancer Genet Cytogenet. 2002;138:160–164

PII: S0169-5002(06)00515-0

doi: 10.1016/j.lungcan.2006.09.018

Lung Cancer
Volume 55, Issue 1 , Pages 43-51 , January 2007

Article Tools

* Image Usage & Resolution