Screening of DNA copy-number aberrations in gastric cancer cell lines by array-based comparative genomic hybridization

Cancer Science

Volumn 96, Issue 2, 2005, Pages 100-110

  Takada, Hisashi ^a,b   Imoto, Issei ^a,c   Tsuda, Hitoshi ^c,d   Sonoda, Itaru ^a   Ichikura, Takashi ^d   Mochizuki, Hidetaka ^d   Okanoue, Takeshi ^b   Inazawa, Johji ^a,c  

^a TOKYO MEDICAL AND DENTAL UNIVERSITY   (Japan)

^b KYOTO PREFECTURAL UNIVERSITY OF MEDICINE   (Japan)

^c JAPAN SCIENCE AND TECHNOLOGY AGENCY   (Japan)

^d NATIONAL DEFENSE MEDICAL COLLEGE   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

CYCLIN DEPENDENT KINASE 6; DNA; ONCOPROTEIN; CDK6 PROTEIN, HUMAN; CYCLIN DEPENDENT KINASE;

ARTICLE; CANCER CELL CULTURE; CANCER GENETICS; CANCER STAGING; CELL NUCLEUS; CHROMOSOME 10P; CHROMOSOME 10Q; CHROMOSOME 11Q; CHROMOSOME 16P; CHROMOSOME 17Q; CHROMOSOME 18P; CHROMOSOME 18Q; CHROMOSOME 1P; CHROMOSOME 1Q; CHROMOSOME 20P; CHROMOSOME 20Q; CHROMOSOME 22Q; CHROMOSOME 3P; CHROMOSOME 3Q; CHROMOSOME 4P; CHROMOSOME 4Q; CHROMOSOME 5P; CHROMOSOME 7P; CHROMOSOME 7Q; CHROMOSOME 8P; CHROMOSOME 8Q; CHROMOSOME 9P; CHROMOSOME XP; CHROMOSOME XQ; COMPARATIVE GENOMIC HYBRIDIZATION; CONTROLLED STUDY; CYTOPLASM; DNA MICROARRAY; DNA SCREENING; GENE AMPLIFICATION; GENE DELETION; GENE EXPRESSION; GENE LOCUS; GENE LOSS; GENE MUTATION; GENE OVEREXPRESSION; GENETIC GAIN; HISTOPATHOLOGY; HOMOZYGOSITY; HUMAN; HUMAN CELL; IMMUNOHISTOCHEMISTRY; MAJOR CLINICAL STUDY; PATHOGENESIS; PRIORITY JOURNAL; PROGNOSIS; PROTEIN LOCALIZATION; STOMACH CANCER; TUMOR DIFFERENTIATION; ADENOCARCINOMA; CARCINOMA; CELL CULTURE; CHROMOSOME ABERRATION; EVALUATION; GENE DOSAGE; GENETICS; METABOLISM; PATHOLOGY; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; STOMACH TUMOR;

ADENOCARCINOMA; CARCINOMA; CHROMOSOME ABERRATIONS; CYCLIN-DEPENDENT KINASE 6; CYCLIN-DEPENDENT KINASES; GENE DOSAGE; HUMANS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; STOMACH NEOPLASMS; TUMOR CELLS, CULTURED;

EID: 15844425850     PISSN: 13479032     EISSN: None     Source Type: Journal    
DOI: 10.1111/j.1349-7006.2005.00016.x     Document Type: Article

References (38)

1. Whelan SL, Parkin DM, Masuyer E. Trends in cancer incidence and mortality. Lyon: IARC Scientific, 1993.
2. Tahara E. Molecular biology of gastric cancer. World J Surg 1995; 19: 484-90.
3. Sakakura C, Mori T, Sakabe T, Ariyama Y, Shinomiya T, Date K, Hagiwara A, Yamaguchi T, Takahashi T, Nakamura Y, Abe T, Inazawa J. Gains, losses, and amplifications of genomic materials in primary gastric cancers analyzed by comparative genomic hybridization. Genes Chromosomes Cancer 1999; 24: 299-305.
4. Knuutila S, Bjorkqvist AM, Autio K, Tarkkanen M, Wolf M, Monni O, Szymanska J, Larramendy ML, Tapper J, Pere H, El-Rifai W, Hemmer S, Wasenius VM, Vidgren V, Zhu Y. DNA copy number amplifications in human neoplasms: review of comparative genomic hybridization studies. Am J Pathol 1998; 152: 1107-23.
5. Tay ST, Leong SH, Yu K, Aggarwal A, Tan SY, Lee CH, Wong K, Visvanathan J, Lim D, Wong WK, Soo KC, Kon OL, Tan P. A combined comparative genomic hybridization and expression microarray analysis of gastric cancer reveals novel molecular subtypes. Cancer Res 2003; 63: 3309-16.
6. Fukuda Y, Kurihara N, Imoto I, Yasui K, Yoshida M, Yanagihara K, Park JG, Nakamura Y, Inazawa J. CD44 is a potential target of amplification within the 11p13 amplicon detected in gastric cancer cell lines. Genes Chromosomes Cancer 2000; 29: 315-24.
7. Sugimoto N, Imoto I, Fukuda Y, Kurihara N, Kuroda S, Tanigami A, Kaibuchi K, Kamiyama R, Inazawa J. IQGAP1, a negative regulator of cell-cell adhesion, is upregulated by gene amplification at 15q26 in gastric cancer cell lines HSC39 and 40A. J Hum Genet 2001; 46 21-5.
8. Bentz M, Plesch A, Stilgenbauer S, Dohner H, Lichter P. Minimal sizes of deletions detected by comparative genomic hybridization. Genes Chromosomes Cancer 1998; 21: 172-5.
9. Kirchhoff M, Gerdes T, Maahr J, Rose H, Bentz M, Dohner H, Lundsteen C. Deletions below 10 mega base pairs are detected in comparative genomic hybridization by standard reference intervals. Genes Chromosomes Cancer 1999; 25: 410-3.
10. Albertson DG, Pinkel D. Genomic microarrays in human genetic disease and cancer. Hum Mol Genet 2003; 12: R145-52.
11. Inazawa J, Inoue J, Imoto I. Comparative genomic hybridization (CGH)-arrays pave the way for identification of novel cancer-related genes. Cancer Sci 2004; 95: 559-63.
12. Imoto I, Yang ZQ, Pimkhaokham A, Tsuda H, Shimada Y, Imamura M, Ohki M, Inazawa J. Identification of cIAP1 as a candidate target gene within an amplicon at 11q22 in esophageal squamous cell carcinomas. Cancer Res 2001; 61: 6629-34.
13. Snijders AM, Nowak N, Segraves R, Blackwood S, Brown N, Conroy J, Hamilton G, Hindle AK, Huey B, Kimura K, Law S, Myambo K, Palmer J, Ylstra B, Yue JP, Gray JW, Jain AN, Pinkel D, Albertson DG. Assembly of microarrays for genome-wide measurement of DNA copy number. Nat Genet 2001; 29: 263-4.
14. Massion PP, Kuo WL, Stokoe D, Olshen AB, Treseler PA, Chin K, Chen C, Polikoff D, Jain AN, Pinkel D, Albertson DG, Jablons DM, Gray JW. 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: 3636-40.
15. Sonoda I, Imoto I, Inoue J, Shibata T, Shimada Y, Chin K, Imamura M, Amagasa T, Gray JW, Hirohashi S, Inazawa J. Frequent silencing of low density lipoprotein receptor-related protein 1B (LRP1B) expression by genetic and epigenetic mechanisms in esophageal squamous-cell carcinoma. Cancer Res 2004; 64: 3741-7.
16. Inazawa J, Ariyama T, Takino T, Tanigami A, Nakamura Y, Abe T. High resolution ordering of DNA markers by multi-colour fluorescent in situ hybridization of prophase chromosomes. Cytogenet Cell Genet 1994; 65: 130-5.
17. Ariyama Y, Sakabe T, Shinomiya T, Mori T, Fukuda Y, Inazawa J. Identification of amplified DNA sequences on double minute chromosomes in a leukemic cell line KY821 by means of spectral karyotyping and comparative genomic hybridization. J Hum Genet 1998; 43: 187-90.
18. Yasui K, Arii S, Zhao C, Imoto I, Ueda M, Nagai H, Emi M, Inazawa J. TFDP1, CUL4A, and CDC16 identified as targets for amplification at 13q34 in hepatocellular carcinomas. Hepatology 2002; 35: 1476-84.
19. Lauren P. The two histological main types of gastric adenocarcinoma: diffuse and so-called intestinal-type carcinoma. Acta Pathol Microbiol Scand 1965; 64: 31-49.
20. Peng DF, Sugihara H, Mukaisho K, Tsubosa Y, Hattori T. Alterations of chromosomal copy number during progression of diffuse-type gastric carcinomas: metaphase- and array-based comparative genomic, hybridization analyses of multiple samples from individual tumours. J Pathol 2003; 201: 439-50.
21. Kong G, Oga A, Park CK, Kawauchi S, Furuya T, Sasaki K. DNA sequence copy number aberrations associated with histological subtypes and DNA ploidy in gastric carcinoma. Jpn J Cancer Res 2001; 92 740-7.
22. Becker KF, Atkinson MJ, Reich U, Becker I, Nekarda H, Siewert JR, Hofler H. E-cadherin gene mutations provide clues to diffuse type gastric carcinomas. Cancer Res 1994; 54: 3845-52.
23. Kim KM, Kwon MS, Hong SJ, Min KO, Seo EJ, Lee KY, Choi SW, Rhyu MG. Genetic classification of intestinal-type and diffuse-type gastric cancers based on chromosomal loss and microsatellite instability. Virchows Arch 2003; 443: 491-500.
24. Chen HC, Chu RY, Hsu PN, Hsu PI, Lu JY, Lai KH, Tseng HH, Chou NH, Huang MS, Tseng CJ, Hsiao M. Loss of E-cadherin expression correlates with poor differentiation and invasion into adjacent organs in gastric adenocarcinomas. Cancer Lett 2003; 201: 97-106.
25. Wilhelm M, Veltman JA, Olshen AB, Jain AN, Moore DH, Presti JC Jr, Kovacs G, Waldman FM. Array-based comparative genomic hybridization for the differential diagnosis of renal cell cancer. Cancer Res 2002; 62: 957-60.
26. Akama Y, Tasui W, Yokozaki H, Kuniyasu H, Kitahara K, Ishikawa T, Tahara E. Frequent amplification of the cyclin E gene in human gastric carcinomas. Jpn J Cancer Res 1995; 86: 617-21.
27. Meyerson M, Harlow E. Identification of G1 kinase activity for cdk6, a novel cyclin D partner. Mol Cell Biol 1994; 14: 2077-86.
28. Chilosi M, Doglioni C, Yan Z, Lestani M, Menestrina F, Sorio C, Benedetti A, Vinante F, Pizzolo G, Inghirami G. Differential expression of cyclin-dependent kinase 6 in cortical thymocytes and T-cell lymphoblastic lymphoma/leukemia. Am J Pathol 1998; 152: 209-17.
29. Timmermann S, Hinds PW, Munger K. Elevated activity of cyclin-dependent kinase 6 in human squamous cell carcinoma lines. Cell Growth Differ 1997; 8: 361-70.
30. Costello JF, Plass C, Arap W, Chapman VM, Held WA, Berger MS, Su Huang HJ, Cavenee WK. Cyclin-dependent kinase 6 (CDK6) amplification in human gliomas identified using two-dimensinal separation of genomic DNA. Cancer Res 1997; 57: 1250-4.
31. Easton J, Wei T, Lahti JM, Kidd VJ. Disruption of the cyclin D/cyclin-dependent kinase/INK4/retinoblastoma protein regulatory pathway in human neuroblastoma. Cancer Res 1998; 58: 2624-32.
32. Friend SH, Bernards R, Rogelj S, Weinberg RA, Rapaport JM, Albert DM, Dryja TP. A human DNA segment with properties of the gene that predisposes to retinoblastoma and osteosarcoma. Nature 1986; 323 643-6.
33. Kamb A, Gruis NA, Weaver-Feldhaus J, Liu Q, Harshman K, Tavtigian SV, Stockert E, Day RS III, Johnson BE, Skolnick MH. A cell cycle regulator potentially involved in genesis of many tumor types. Science 1994; 264: 436-40.
34. Hahn SA, Schutte M, Hoque AT, Moskaluk CA, da Costa LT, Rozenblum E, Weinstein CL, Fischer A, Yeo CJ, Hruban RH, Kern SE. DPC4, a candidate tumor suppressor gene at human chromosome 18q21.1. Science 1996; 271: 350-3.
35. Li J, Yen C, Liaw D, Podsypanina K, Bose S, Wang SI, Puc J, Miliaresis C, Rodgers L, McCombie R, Bigner SH, Giovanella BC, Ittmann M, Tycko B, Hibshoosh H, Wigler MH, Parsons R. PTEN, a putative protein tyrosine phosphatase gene mutated in human brain, breast, and prostate cancer. Science 1997; 275: 1943-7.
36. Dammann R, Li C, Yoon JH, Chin PL, Bates S, Pfeifer GP. Epigenetic inactivation of a RAS association domain family protein from the lung tumour suppressor locus 3p21.3. Nat Genet 2000; 25: 315-9.
37. Akama Y, Yasui W, Kuniyasu H, Yokozaki H, Akagi M, Tahara H, Ishikawa T, Tahara E. Genetic status and expression of the cyclin-dependent kinase inhibitors in human gastric carcinoma cell lines. Jpn J Cancer Res 1996; 87: 824-30.
38. Constancia M, Seruca R, Carneiro F, Silva F, Castedo S. Retinoblastoma gene structure and product expression in human gastric carcinomas. Br J Cancer 1994; 70: 1018-24.