Gene expression profiling of human HBV- and/or HCV-associated hepatocellular carcinoma cells using expressed sequence tags

International Journal of Oncology

Volumn 29, Issue 2, 2006, Pages 315-327

  Yoon, Sun Young ^a   Kim, Jeong Min ^a   Oh, Jung Hwa ^a   Jeon, Yeo Jin ^a   Lee, Dong Seok ^a   Kim, Joo Heon ^c   Choi, Jong Young ^d   Ahn, Byung Min ^e   Kim, Sangsoo ^b   Yoo, Hyang Sook ^a   Kim, Yong Sung ^a   Kim, Nam Soon ^a  

^a Korea Research Institute of Bioscience and Biotechnology (KRIBB)   (South Korea)

^b Soongsil University   (South Korea)

^c Eulji University School of Medicine   (South Korea)

^d The Catholic University of Korea College of Medicine   (South Korea)

^e The Catholic University of Korea   (South Korea)

Author keywords

Expressed sequence tag frequency; Expression profiling; Hepatocellular carcinoma

Indexed keywords

COMPLEMENTARY DNA; TUMOR MARKER;

ARTICLE; DNA MICROARRAY; EXPRESSED SEQUENCE TAG; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENE LIBRARY; GENETICS; HEPATITIS B VIRUS; HEPATITIS C VIRUS; HUMAN; LIVER CELL CARCINOMA; LIVER TUMOR; METABOLISM; TUMOR CELL LINE; VIROLOGY;

CARCINOMA, HEPATOCELLULAR; CELL LINE, TUMOR; DNA, COMPLEMENTARY; EXPRESSED SEQUENCE TAGS; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, NEOPLASTIC; GENE LIBRARY; HEPACIVIRUS; HEPATITIS B VIRUS; HUMANS; LIVER NEOPLASMS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; TUMOR MARKERS, BIOLOGICAL;

EID: 34547161981     PISSN: 10196439     EISSN: 17912423     Source Type: Journal    
DOI: 10.3892/ijo.29.2.315     Document Type: Article

References (50)

1. Kasai Y, Takeda S and Takagi H: Pathogenesis of hepatocellular carcinoma: a review from the viewpoint of molecular analysis. Semin Surg Oncol 12: 155-159, 1996.
2. Parkin DM, Pisani P and Ferlay J: Global cancer statistics. CA Cancer J Clin 49: 33-64, 1999.
3. Okuda K, Fujimoto I, Hanai A and Urano Y: Changing incidence of hepatocellular carcinoma in Japan. Cancer Res 47: 4967-4972, 1987.
4. Kim JW and Wang XW: Gene expression profiling of preneoplastic liver disease and liver cancer: a new era for improved early detection and treatment of these deadly diseases? Carcinogenesis 24: 363-369, 2003.
5. Murakami Y, Hayashi K, Hirohashi S and Sekiya T: Aberrations of the tumor suppressor p53 and retinoblastoma genes in human hepatocellular carcinomas. Cancer Res 51: 5520-5525, 1991.
6. Nhieu JT, Renard CA, Wei Y, Cherqui D, Zafrani ES and Buendia MA: Nuclear accumulation of mutated beta-catenin in hepatocellular carcinoma is associated with increased cell proliferation. Am J Pathol 155: 703-710, 1999.
7. Peng SY, Lai PL and Hsu HC: Amplification of the c-myc gene in human hepatocellular carcinoma: biologic significance. J Formos Med Assoc 92: 866-870, 1993.
8. Nishida N, Fukuda Y, Komeda T, Kita R, Sando T, Furukawa M, Amenomori M, Shibagaki I, Nakao K, Ikenaga M, et al: Amplification and overexpression of the cyclin D1 gene in aggressive human hepatocellular carcinoma. Cancer Res 54: 3107-3110, 1994. (Pubitemid 24208910)
9. Kuroki T, Fujiwara Y, Tsuchiya E, Nakamori S, Imaoka S, Kanematsu T and Nakamura Y: Accumulation of genetic changes during development and progression of hepatocellular carcinoma: loss of heterozygosity of chromosome arm 1p occurs at an early stage of hepatocarcinogenesis. Genes Chromosomes Cancer 13: 163-167, 1995.
10. De Souza AT, Hankins GR, Washington MK, Fine RL, Orton TC and Jirtle RL: Frequent loss of heterozygosity on 6q at the mannose 6-phosphate/insulin-like growth factor II receptor locus in human hepatocellular tumors. Oncogene 10: 1725-1729, 1995.
11. Nishida N, Fukuda Y, Kokuryu H, Sadamoto T, Isowa G, Honda K, Yamaoka Y, Ikenaga M, Imura H and Ishizaki K: Accumulation of allelic loss on arms of chromosomes 13q, 16q and 17p in the advanced stages of human hepatocellular carcinoma. Int J Cancer 51: 862-868, 1992.
12. Ito N, Kawata S, Tamura S, Takaishi K, Shirai Y, Kiso S, Yabuuchi I, Matsuda Y, Nishioka M and Tarui S: Elevated levels of transforming growth factor beta messenger RNA and its polypeptide in human hepatocellular carcinoma. Cancer Res 51: 4080-4083, 1991.
13. Cavin LG, Romieu-Mourez R, Panta GR, Sun J, Factor VM, Thorgeirsson SS, Sonenshein GE and Arsura M: Inhibition of CK2 activity by TGF-beta1 promotes IkappaB-alpha protein stabilization and apoptosis of immortalized hepatocytes. Hepatology 38: 1540-1551, 2003. (Pubitemid 37466980)
14. Shirota Y, Kaneko S, Honda M, Kawai HF and Kobayashi K: Identification of differentially expressed genes in hepatocellular carcinoma with cDNA microarrays. Hepatology 33: 832-840, 2001. (Pubitemid 32246632)
15. Xu XR, Huang J, Xu ZG, Qian BZ, Zhu ZD, Yan Q, Cai T, Zhang X, Xiao HS, Qu J, Liu F, Huang QH, Cheng ZH, Li NG, Du JJ, Hu W, Shen KT, Lu G, Fu G, Zhong M, Xu SH, Gu WY, Huang W, Zhao XT, Hu GX, Gu JR, Chen Z and Han ZG: Insight into hepatocellular carcinogenesis at transcriptome level by comparing gene expression profiles of hepatocellular carcinoma with those of corresponding noncancerous liver. Proc Natl Acad Sci USA 98: 15089-15094, 2001.
16. Suriawinata A and Xu R: An update on the molecular genetics of hepatocellular carcinoma. Semin Liver Dis 24: 77-88, 2004.
17. Okabe H, Satoh S, Kato T, Kitahara O, Yanagawa R, Yamaoka Y, Tsunoda T, Furukawa Y and Nakamura Y: Genome-wide analysis of gene expression in human hepatocellular carcinomas using cDNA microarray: identification of genes involved in viral carcinogenesis and tumor progression. Cancer Res 61: 2129-2137, 2001.
18. Yamashita T, Kaneko S, Hashimoto S, Sato T, Nagai S, Toyoda N, Suzuki T, Kobayashi K and Matsushima K: Serial analysis of gene expression in chronic hepatitis C and hepatocellular carcinoma. Biochem Biophys Res Commun 282: 647-654, 2001. (Pubitemid 32917921)
19. Wu CG, Forgues M, Siddique S, Farnsworth J, Valerie K and Wang XW: SAGE transcript profiles of normal primary human hepatocytes expressing oncogenic hepatitis B virus X protein. FASEB J 16: 1665-1667, 2002.
20. Chen X, Cheung ST, So S, Fan ST, Barry C, Higgins J, Lai KM, Ji J, Dudoit S, Ng IO, Van De Rijn M, Botstein D and Brown PO: Gene expression patterns in human liver cancers. Mol Biol Cell 13: 1929-1939, 2002.
21. Tackels-Horne D, Goodman MD, Williams AJ, Wilson DJ, Eskandari T, Vogt LM, Boland JF, Scherf U and Vockley JG: Identification of differentially expressed genes in hepatocellular carcinoma and metastatic liver tumors by oligonucleotide expression profiling. Cancer 92: 395-405, 2001.
22. Adams MD, Kelley JM, Gocayne JD, Dubnick M, Xiao H, Polymeropoulos MH, Merril CR, Wu A, Olde B, Moreno RF, et al: Complementary DNA sequencing: expressed sequence tags and human genome project. Science 252: 1651-1656, 1991.
23. Okubo K, Hori N, Matoba R, Niiyama T, Fukushima A, Kojima Y and Matsubara K: Large scale cDNA sequencing for analysis of quantitative and qualitative aspects of gene expression. Nat Genet 2: 173-179, 1992.
24. Mao M, Fu G, Wu JS, Zhang QH, Zhou J, Kan LX, Huang QH, He KL, Gu BW, Han ZG, Shen Y, Gu J, Yu YP, Xu SH, Wang YX, Chen SJ and Chen Z: Identification of genes expressed in human CD34(+) hematopoietic stem/progenitor cells by expressed sequence tags and efficient full-length cDNA cloning. Proc Natl Acad Sci USA 95: 8175-8180, 1998.
25. Kato S, Sekine S, Oh SW, Kim NS, Umezawa Y, Abe N, Yokoyama-Kobayashi M and Aoki T: Construction of a human full-length cDNA bank. Gene 150: 243-250, 1994.
26. Maruyama K and Sugano S: Oligo-capping: a simple method to replace the cap structure of eukaryotic mRNAs with oligoribonucleotides. Gene 138: 171-174, 1994.
27. Park JG, Lee JH, Kang MS, Park KJ, Jeon YM, Lee HJ, Kwon HS, Park HS, Yeo KS, Lee KU, et al: Characterization of cell lines established from human hepatocellular carcinoma. Int J Cancer 62: 276-282, 1995.
28. Kim DG, Park SY, You KR, Lee GB, Kim H, Moon WS, Chun YH and Park SH: Establishment and characterization of chromosomal aberrations in human cholangiocarcinoma cell lines by cross-species color banding. Genes Chromosomes Cancer 30: 48-56, 2001.
29. Edmondson HA and Steiner PE: Primary carcinoma of the liver: a study of 100 cases among 48,900 necropsies. Cancer 7: 462-503, 1954.
30. Kim NS, Hahn Y, Oh JH, Lee JY, Oh KJ, Kim JM, Park HS, Kim S, Song KS, Rho SM, Yoo HS and Kim YS: Gene cataloging and expression profiling in human gastric cancer cells by expressed sequence tags. Genomics 83: 1024-1045, 2004.
31. Audic S and Claverie JM: The significance of digital gene expression profiles. Genome Res 7: 986-995, 1997. (Pubitemid 27487763)
32. Kim JM, Sohn HY, Yoon SY, Oh JH, Yang JO, Kim JH, Song KS, Rho SM, Yoo HS, Kim YS, Kim JG and Kim NS: Identification of gastric cancer-related genes using a cDNA microarray containing novel expressed sequence tags expressed in gastric cancer cells. Clin Cancer Res 11: 473-482, 2005.
33. Weber G: Enzymology of cancer cells (first of two parts). N Engl J Med 296: 486-492, 1977.
34. Weber G: Enzymology of cancer cells (second of two parts). N Engl J Med 296: 541-551, 1977. (Pubitemid 8038324)
35. Naughton DP: Hypoxia-induced upregulation of the glycolytic enzyme glucose-6-phosphate isomerase perpetuates rheumatoid arthritis. Med Hypotheses 60: 332-334, 2003.
36. Shuda M, Kondoh N, Tanaka K, Ryo A, Wakatsuki T, Hada A, Goseki N, Igari T, Hatsuse K, Aihara T, Horiuchi S, Shichita M, Yamamoto N and Yamamoto M: Enhanced expression of translation factor mRNAs in hepatocellular carcinoma. Anticancer Res 20: 2489-2494, 2000. (Pubitemid 30614457)
37. Kondoh N, Shuda M, Tanaka K, Wakatsuki T, Hada A and Yamamoto M: Enhanced expression of S8, L12, L23a, L27 and L30 ribosomal protein mRNAs in human hepatocellular carcinoma. Anticancer Res 21: 2429-2433, 2001. (Pubitemid 33054406)
38. Kim JH, You KR, Kim IH, Cho BH, Kim CY and Kim DG: Overexpression of the ribosomal protein L36a gene is associated with cellular proliferation in hepatocellular carcinoma. Hepatology 39: 129-138, 2004.
39. Hu J and Seeger C: Hsp90 is required for the activity of a hepatitis B virus reverse transcriptase. Proc Natl Acad Sci USA 93: 1060-1064, 1996. (Pubitemid 26052842)
40. Chuma M, Sakamoto M, Yamazaki K, Ohta T, Ohki M, Asaka M and Hirohashi S: Expression profiling in multistage hepatocarcinogenesis: identification of HSP70 as a molecular marker of early hepatocellular carcinoma. Hepatology 37: 198-207, 2003. (Pubitemid 36042161)
41. Mosser DD and Morimoto RI: Molecular chaperones and the stress of oncogenesis. Oncogene 23: 2907-2918, 2004.
42. Le Bail B, Faouzi S, Boussarie L, Balabaud C, Bioulac-Sage P and Rosenbaum J: Extracellular matrix composition and integrin expression in early hepatocarcinogenesis in human cirrhotic liver. J Pathol 181: 330-337, 1997. (Pubitemid 27156848)
43. Iizuka N, Oka M, Yamada-Okabe H, Hamada K, Nakayama H, Mori N, Tamesa T, Okada T, Takemoto N, Matoba K, Takashima M, Sakamoto K, Tangoku A, Miyamoto T, Uchimura S and Hamamoto Y: Molecular signature in three types of hepatocellular carcinoma with different viral origin by oligonucleotide microarray. Int J Oncol 24: 565-574, 2004.
44. Iizuka N, Oka M, Yamada-Okabe H, Mori N, Tamesa T, Okada T, Takemoto N, Tangoku A, Hamada K, Nakayama H, Miyamoto T, Uchimura S and Hamamoto Y: Comparison of gene expression profiles between hepatitis B virus- and hepatitis C virus-infected hepatocellular carcinoma by oligonucleotide microarray data on the basis of a supervised learning method. Cancer Res 62: 3939-3944, 2002. (Pubitemid 34791056)
45. Aizaki H, Harada T, Otsuka M, Seki N, Matsuda M, Li YW, Kawakami H, Matsuura Y, Miyamura T and Suzuki T: Expression profiling of liver cell lines expressing entire or parts of hepatitis C virus open reading frame. Hepatology 36: 1431-1438, 2002. (Pubitemid 35403534)
46. Bieche I, Asselah T, Laurendeau I, Vidaud D, Degot C, Paradis V, Bedossa P, Valla DC, Marcellin P and Vidaud M: Molecular profiling of early stage liver fibrosis in patients with chronic hepatitis C virus infection. Virology 332: 130-144, 2005. (Pubitemid 40127235)
47. Delpuech O, Trabut JB, Carnot F, Feuillard J, Brechot C and Kremsdorf D: Identification, using cDNA macroarray analysis, of distinct gene expression profiles associated with pathological and virological features of hepatocellular carcinoma. Oncogene 21: 2926-2937, 2002. (Pubitemid 34499393)
48. Gerke V and Moss SE: Annexins: from structure to function. Physiol Rev 82: 331-371, 2002.
49. Tomonaga T, Matsushita K, Yamaguchi S, Oh-Ishi M, Kodera Y, Maeda T, Shimada H, Ochiai T and Nomura F: Identification of altered protein expression and post-translational modifications in primary colorectal cancer by using agarose two-dimensional gel electrophoresis. Clin Cancer Res 10: 2007-2014, 2004. (Pubitemid 38375560)
50. Chetcuti A, Margan SH, Russell P, Mann S, Millar DS, Clark SJ, Rogers J, Handelsman DJ and Dong Q: Loss of annexin II heavy and light chains in prostate cancer and its precursors. Cancer Res 61: 6331-6334, 2001. (Pubitemid 32783232)