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  • Oncogenomics
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Comprehensive analysis of the gene expression profiles in human gastric cancer cell lines

Oncogene volume 21, pages 6549–6556 (2002)Cite this article

Abstract

Gastric adenocarcinoma is one of the major malignancies worldwide. Gastric cell lines have been widely used as the model to study the genetics, pharmacology and biochemistry of gastric cancers. Here we describe a comprehensive survey of the gene expression profiles of 12 gastric carcinoma cell lines, using cDNA microarray with 43 000 clones. For comparison, we also explored the gene expression patterns of 15 cell lines derived from lymphoid, endothelial, stromal and other epithelial cancers. Expression levels of specific genes were validated through comparison to protein expression by immunohistochemistry using cell block arrays. We found sets of genes whose expression corresponds to the molecular signature of each cell type. In the gastric cancer cell lines, apart from genes that are highly expressed corresponding to their common epithelial origin from the gastrointestinal tract, we found marked heterogeneity among the gene expression patterns of these cell lines. Some of the heterogeneity may reflect their underlying molecular characteristics or specific differentiation program. Two putative gastric carcinoma cell lines were found to be B-cell lymphoma, and another one had no epithelial specific gene expression and hence was of doubtful epithelial origin. These cell lines should no longer be used in gastric carcinoma research. In conclusion, our gene expression database can serve as a powerful resource for the study of gastric cancer using these cell lines.

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References

  • Alizadeh AA, Eisen MB, Davis RE, Ma C, Lossos IS, Rosenwald A, Boldrick JC, Sabet H, Tran T, Yu X, Powell JI, Yang L, Marti GE, Moore T, Hudson J, Lu L, Lewis DB, Tibshirani R, Sherlock G, Chan WC, Greiner TC, Weisenburger DD, Armitage JO, Warnke R, Staudt LM et al . 2000 Nature 403: 503–511

  • Debruyne P, Vermeulen S, Mareel M . 1999 Acta. Gastroenterol. Belg. 62: 393–402

  • Ebert MP, Yu J, Sung JJ, Malfertheiner P . 2000 Eur. J. Gastroenterol. Hepatol. 12: 795–798

  • Eisen MB, Spellman PT, Brown PO, Botstein D . 1998 Proc. Natl. Acad. Sci. USA 95: 14863–14868

  • Golub TR, Slonim DK, Tamayo P, Huard C, Gaasenbeek M, Mesirov JP, Coller H, Loh ML, Downing JR, Caligiuri MA, Bloomfield CD, Lander ES . 1999 Science 286: 531–537

  • Grotzinger C, Kneifel J, Patschan D, Schnoy N, Anagnostopoulos I, Faiss S, Tauber R, Wiedenmann B, Gessner R . 2001 Gut 49: 73–81

  • Monks A, Scudiero DA, Johnson GS, Paull KD, Sausville EA . 1997 Anticancer Drug Des. 12: 533–541

  • Nollet F, Berx G, van Roy F . 1999 Mol. Cell Biol. Res. Commun. 2: 77–85

  • Osborn M, Mazzoleni G, Santini D, Marrano D, Martinelli G, Weber K . 1988 Virchows Arch. A. Pathol. Anat. Histopathol. 413: 303–312

  • Parkin DM, Pisani P, Ferlay J . 1999 Int. J. Cancer 80: 827–841

  • Peddanna N, Holt S, Verma RS . 1995 Anticancer Res. 15: 2055–2064

  • Perou CM, Sorlie T, Eisen MB, van de Rijn M, Jeffrey SS, Rees CA, Pollack JR, Ross DT, Johnsen H, Akslen LA, Fluge O, Pergamenschikov A, Williams C, Zhu SX, Lonning PE, Borresen-Dale AL, Brown PO, Botstein D . 2000 Nature 406: 747–752

  • Pisani P, Parkin DM, Bray F, Ferlay J . 1999 Int. J. Cancer 83: 18–29

  • Pollack JR, Perou CM, Alizadeh AA, Eisen MB, Pergamenschikov A, Williams CF, Jeffrey SS, Botstein D, Brown PO . 1999 Nat. Genet. 23: 41–46

  • Ramaswamy S, Tamayo P, Rifkin R, Mukherjee S, Yeang CH, Angelo M, Ladd C, Reich M, Latulippe E, Mesirov JP, Poggio T, Gerald W, Loda M, Lander ES, Golub TR . 2001 Proc. Natl. Acad. Sci. USA 98: 15149–15154

  • Ross DT, Scherf U, Eisen MB, Perou CM, Rees C, Spellman P, Iyer V, Jeffrey SS, Van de Rijn M, Waltham M, Pergamenschikov A, Lee JC, Lashkari D, Shalon D, Myers TG, Weinstein JN, Botstein D, Brown PO . 2000 Nat. Genet. 24: 227–235

  • Scherf U, Ross DT, Waltham M, Smith LH, Lee JK, Tanabe L, Kohn KW, Reinhold WC, Myers TG, Andrews DT, Scudiero DA, Eisen MB, Sausville EA, Pommier Y, Botstein D, Brown PO, Weinstein JN . 2000 Nat. Genet. 24: 236–244

  • Sherlock G, Hernandez-Boussard T, Kasarskis A, Binkley G, Matese JC, Dwight SS, Kaloper M, Weng S, Jin H, Ball CA, Eisen MB, Spellman PT, Brown PO, Botstein D, Cherry JM . 2001 Nucleic Acids Res. 29: 152–155

  • Staunton JE, Slonim DK, Coller HA, Tamayo P, Angelo MJ, Park J, Scherf U, Lee JK, Reinhold WO, Weinstein JN, Mesirov JP, Lander ES, Golub TR . 2001 Proc. Natl. Acad. Sci. USA 98: 10787–10792

  • Tokunaga A, Onda M, Okuda T, Teramoto T, Fujita I, Mizutani T, Kiyama T, Yoshiyuki T, Nishi K, Matsukura N . 1995 Cancer 75: 1418–1425

  • Welsh JB, Zarrinkar PP, Sapinoso LM, Kern SG, Behling CA, Monk BJ, Lockhart DJ, Burger RA, Hampton GM . 2001 Proc. Natl. Acad. Sci. USA 98: 1176–1181

  • Yokozaki H . 2000 Pathol. Int. 50: 767–777

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Acknowledgements

We are grateful for the members of the Patrick Brown Laboratory at the Department of Biochemistry, Stanford University. We are especially thankful for the advice of this project provided by Drs Patrick Brown and David Botstein. We also thank the Stanford Functional Genomic Center, Stanford Microarray database, and Stanford Asian Liver Center for their support, and Wijan Prapong for his help in the preparation of this manuscript. This work is supported by the HM Lui Foundation (X Chen, R Li, and S So); Research Grants Council of the Hong Kong Special Administrative Region (HKU 7264/01M); and China ‘973’ grant (G1998051203).

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Author notes

  1. Jiafu Ji, Xin Chen and Suet Yi Leung: These authors contributed equally to this work.

Authors and Affiliations

  1. Department of Surgery, Beijing Cancer Hospital, Peking University School of Oncology, Beijing, China

    Jiafu Ji

  2. Department of Surgery, Stanford University, California, Stanford, USA

    Xin Chen, Rui Li & Samuel So

  3. Asian Liver Center, Stanford University, California, Stanford, USA

    Xin Chen, Rui Li & Samuel So

  4. Department of Pathology, The University of Hong Kong, Queen Mary Hospital, Hong Kong, China

    Suet Yi Leung, Siu Tsan Yuen & Annie SY Chan

  5. Department of Biochemistry, Stanford University, California, Stanford, USA

    Jen-Tsan A Chi

  6. Department of Surgery, The University of Hong Kong, Queen Mary Hospital, Hong Kong, China

    Kent Man Chu

  7. Pathology Department, Beijing Cancer Hospital, Peking University School of Oncology, Beijing, China

    Jiyou Li

  8. Department of Genetics, Stanford University, California, Stanford, USA

    Nina Dunphy

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  1. Jiafu Ji
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  2. Xin Chen
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Correspondence to Samuel So.

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Ji, J., Chen, X., Leung, S. et al. Comprehensive analysis of the gene expression profiles in human gastric cancer cell lines. Oncogene 21, 6549–6556 (2002). https://doi.org/10.1038/sj.onc.1205829

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