Shifting Gene Expression Profiles during Ex Vivo Culture of Renal Tumor Cells: Implications for Cancer Immunotherapy

Oncology Research

Volumn 14, Issue 3, 2003, Pages 133-145

  Moschella, Federica ^a   Catanzaro, Richard P ^a   Bisikirska, Brygida ^a   Sawczuk, Ihor S ^c   Papadapoulos, Kyriakos P ^a   Ferrante, Anthony W ^a   McKiernan, James M ^a   Hesdorffer, Charles S ^a   Harris, Paul E ^a   Maffei, Antonella ^a,b  

^a Columbia Univ Coll of Phys/Surgs ^*  (United States)

^b INSTITUTE OF GENETICS AND BIOPHYSICS ADRIANO BUZZATI TRAVERSO   (Italy)

^c HACKENSACK UNIVERSITY MEDICAL CENTER   (United States)

Author keywords

Autoantigens; cDNA microarray; Tumor antigens; Vaccines

Indexed keywords

AUTOANTIGEN; CANCER VACCINE; TUMOR ANTIGEN;

ARTICLE; AUTOIMMUNITY; CANCER IMMUNOTHERAPY; CELL COMPOSITION; CONTROLLED STUDY; DNA MICROARRAY; GENE EXPRESSION REGULATION; GENE OVEREXPRESSION; HUMAN; HUMAN TISSUE; KIDNEY TUMOR; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; TISSUE DISTRIBUTION; TUMOR CELL CULTURE; TUMOR CELL LINE; UNINDEXED SEQUENCE;

EID: 0842327356     PISSN: 09650407     EISSN: None     Source Type: Journal    
DOI: 10.3727/000000003771013080     Document Type: Article

References (58)

1. Renkvist, N.; Castelli, C.; Robbins, P. F.; Parmiani, G. A listing of human tumor antigens recognized by T cells. Cancer Immunol. Immunother. 50: 3-15; 2001.
2. Rosenberg, S. A.; Yang, J. C.; Topalian, S. L.; Schwartzentruber, D. J.; Weber, J. S.; Parkinson, D. R.; Seipp, C. A.; Einhorn, J. H.; White, D. E. Treatment of 283 consecutive patients with metastatic melanoma or renal cell cancer using high-dose bolus interleukin 2. JAMA 271:907-913; 1994.
3. Ronsin, C.; Chung-Scott, V.; Poullion, I.; Aknouche, N.; Gaudin, C.; Triebel, F. A non-AUG-defined alternative open reading frame of the intestinal carboxyl esterase mRNA generates an epitope recognized by renal cell carcinoma-reactive tumor-infiltrating lymphocytes in situ. J. Immunol. 163:483-490; 1999.
4. Vissers, J. L.; De Vries, I. J.; Schreurs, M. W.; Engelen, L. P.; Oosterwijk, E.; Figdor, C. G.; Adema, G. J. The renal cell carcinoma-associated antigen G250 encodes a human leukocyte antigen (HLA)-A2.1-restricted epitope recognized by cytotoxic T lymphocytes. Cancer Res. 59:5554-5559; 1999.
5. Neumann, E.; Engelsberg, A.; Decker, J.; Storkel, S.; Jaeger, E.; Huber, C.; Seliger, B. Heterogeneous expression of the tumor-associated antigens RAGE-1, PRAME, and glycoprotein 75 in human renal cell carcinoma: Candidates for T-cell-based immunotherapies? Cancer Res. 58:4090-4095; 1998.
6. Stassar, M. J.; Devitt, G.; Brosius, M.; Rinnab, L.; Prang, J.; Schradin, T.; Simon, J.; Petersen, S.; Kopp-Schneider, A.; Zoller, M. Identification of human renal cell carcinoma associated genes by suppression subtractive hybridization. Br. J. Cancer 85:1372-1382; 2001.
7. Skubitz, K. M.; Skubitz, A. P. Differential gene expression in renal-cell cancer. J. Lab. Clin. Med. 140:52-64: 2002.
8. Boer, J. M.; Huber, W. K.; Sultmann, H.; Wilmer, F.; von Heydebreck, A.; Haas, S.; Korn, B.; Gunawan, B.; Vente, A.; Fuzesi, L.; Vingron, M.; Poustka, A. Identification and classification of differentially expressed genes in renal cell carcinoma by expression profiling on a global human 31,500-element cDNA array. Genome Res. 11:1861-1870; 2001.
9. Takahashi, M.; Rhodes, D. R.; Furge, K. A.; Kanayama, H.; Kagawa, S.; Haab, B. B.; Teh, B. T. Gene expression profiling of clear cell renal cell carcinoma: Gene identification and prognostic classification. Proc. Natl. Acad. Sci. USA 98:9754-9759; 2001.
10. Moch, H.; Schraml, P.; Bubendorf, L.; Mirlacher, M.; Kononen, J.; Gasser, T.; Mihatsch, M. J.; Kallioniemi, O. P.; Sauter, G. High-throughput tissue microarray analysis to evaluate genes uncovered by cDNA microarray screening in renal cell carcinoma. Am. J. Pathol. 154:981-986; 1999.
11. Scanlan, M. J.; Gordan, J. D.; Williamson, B.; Stockert, E.; Bander, N. H.; Jongeneel, V.; Gure, A. O.; Jager, D.; Jager, E.; Knuth, A.; Chen, Y. T.; Old, L. J. Antigens recognized by autologous antibody in patients with renal-cell carcinoma. Int. J. Cancer 83:456-464; 1999.
12. Lichtenfels, R.; Kellner, R.; Atkins, D.; Bukur, J.; Ackermann, A.; Beck, J.; Brenner, W.; Melchior, S.; Seliger, B. Identification of metabolic enzymes in renal cell carcinoma utilizing PROTEOMEX analyses. Biochim. Biophys. Acta Proteins Proteomics 1646:21-31; 2003.
13. Unwin, R. D.; Harnden, P.; Pappin, D.; Rahman, D.; Whelan, P.; Craven, R. A.; Selby, P. J.; Banks, R. E. Serological and proteomic evaluation of antibody responses in the identification of tumor antigens in renal cell carcinoma. Proteomics 3:45-55; 2003.
14. Klade, C. S.; Voss, T.; Krystek, E.; Ahorn, H.; Zatloukal, K.; Pummer, K.; Adolf, G. R. Identification of tumor antigens in renal cell carcinoma by serological proteome analysis. Proteomics 1:890-898; 2001.
15. Dillman, R. O.; Barth, N. M.; VanderMolen, L. A.; Garfield, D. H.; De Leon, C.; O'Connor, A. A.; Mahdavi, K.; Nayak, S. K. Treatment of kidney cancer with autologous tumor cell vaccines of short-term cell lines derived from renal cell carcinoma. Cancer Biother. Radiopharm. 16:47-54; 2001.
16. Kawai, K.; Tani, K.; Yamashita, N.; Tomikawa, S.; Eriguchi, M.; Fujime, M.; Okumura, K.; Kakizoe, T.; Clift, S.; Ando, D.; Mulligan, R.; Yamauchi, A.; Noguchi, M.; Asano, S.; Akaza, H. Advanced renal cell carcinoma treated with granulocyte-macrophage colony-stimulating factor gene therapy: A clinical course of the first Japanese experience. Int. J. Urol. 9:462-466; 2002.
17. Guermonprez, P.; Valladeau, J.; Zitvogel, L.; Thery, C.; Amigorena, S. Antigen presentation and T cell stimulation by dendritic cells. Annu. Rev. Immunol. 20:621-667; 2002.
18. Geiger, J. D.; Hutchinson, R. J.; Hohenkirk, L. F.; McKenna, E. A.; Yanik, G. A.; Levine, J. E.; Chang, A. E.; Braun, T. M.; Mule, J. J. Vaccination of pediatric solid tumor patients with tumor lysate-pulsed dendritic cells can expand specific T cells and mediate tumor regression. Cancer Res. 61:8513-8519; 2001.
19. Mulders, P.; Tso, C. L.; Gitlitz, B.; Kaboo, R.; Hinkel, A.; Frand, S.; Kiertscher, S.; Roth, M. D.; deKernion, J.; Figlin, R.; Belldegrun, A. Presentation of renal tumor antigens by human dendritic cells activates tumor-infiltrating lymphocytes against autologous tumor: Implications for live kidney cancer vaccines. Clin. Cancer Res. 5:445-454; 1999.
20. Nestle, F. O.; Alijagic, S.; Gilliet, M.; Sun, Y.; Grabbe, S.; Dummer, R.; Burg, G.; Schadendorf, D. Vaccination of melanoma patients with peptide- or tumor lysate-pulsed dendritic cells. Nat. Med. 4:328-332; 1998.
21. Scott-Taylor, T. H.; Pettengell, R.; Clarke, I.; Stuhler, G.; La Barthe, M. C.; Walden, P.; Dalgleish, A. G. Human tumour and dendritic cell hybrids generated by electrofusion: Potential for cancer vaccines. Biochim. Biophys. Acta 1500:265-279; 2000.
22. Gilboa, E. The risk of autoimmunity associated with tumor immunotherapy. Nat. Immunol. 2:789-792; 2001.
23. Ludewig, B.; Ochsenbein, A. F.; Odermatt, B.; Paulin, D.; Hengartner, H. ; Zinkernagel, R. M. Immunotherapy with dendritic cells directed against tumor antigens shared with normal host cells results in severe autoimmune disease. J. Exp. Med. 191:795-804; 2000.
24. Albert, M. L.; Darnell, J. C.; Bender, A.; Francisco, L. M.; Bhardwaj, N.; Darnell, R. B. Tumor-specific killer cells in paraneoplastic cerebellar degeneration. Nat. Med. 4:1321-1324; 1998.
25. Iyer, V. R.; Eisen, M. B.; Ross, D. T.; Schuler, G.; Moore, T.; Lee, J. C.; Trent, J. M.; Staudt, L. M.; Hudson, J.; Jr.; Boguski, M. S.; Lashkari, D.; Shalon, D.; Botstein, D.; Brown, P. O. The transcriptional program in the response of human fibroblasts to serum. Science 283:83-87; 1999.
26. Baker, T. K.; Carfagna, M. A.; Gao, H.; Dow, E. R.; Li, Q.; Searfoss, G. H.; Ryan, T. P. Temporal gene expression analysis of monolayer cultured rat hepatocytes. Chem. Res. Toxicol. 14:1218-1231; 2001.
27. Ross, D. T.; Scherf, U.; Eisen, M. B.; Perou, C. M.; Rees, C.; Spellman, P.; Iyer, V.; Jeffrey, S. S.; Van de Rijn, M.; Waltham, M.; Pergamenschikov, A. ; Lee, J. C.; Lashkari, D.; Shalon, D.; Myers, T. G.; Weinstein, J. N.; Botstein, D.; Brown, P. O. Systematic variation in gene expression patterns in human cancer cell lines. Nat. Genet. 24:227-235; 2000.
28. Ferrante, A. W., Jr.; Thearle, M.; Liao, T.; Leibel, R. L. Effects of leptin deficiency and short-term repletion on hepatic gene expression in genetically obese mice. Diabetes 50:2268-2278; 2001.
29. Eisen, M. B. ScanAlyze 2.44; 1999.
30. Eisen, M. B. Cluster and Tree View; 1998.
31. Fahmy, T. XLSTAT. XLStat Pro 5 ed. Paris: Addinsoft; 1993.
32. Kuruvilla, F. G.; Park, P. J.; Schreiber, S. L. Vector algebra in the analysis of genome-wide expression data. Genome Biol. 3:RESEARCH0011; 2002.
33. Boon, K.; Osorio, E. C.; Greenhut, S. F.; Schaefer, C. F.; Shoemaker, J. ; Polyak, K.; Morin, P. J.; Buetow, K. H.; Strausberg, R. L.; De Souza, S. J.; Riggins, G. J. An anatomy of normal and malignant gene expression. Proc. Natl. Acad. Sci. USA 99:11287-11292; 2002.
34. Strausberg, R. L.; Camargo, A. A.; Riggins, G. J.; Schaefer, C. F.; De Souza, S. J.; Grouse, L. H.; Lal, A.; Buetow, K. H.; Boon, K.; Greenhut, S. F.; Simpson, A. J. An international database and integrated analysis tools for the study of cancer gene expression. Pharmacogenomics J. 2:156-164; 2002.
35. ESTs, S. O. U. R. f. C. a. SOURCE. Stanford University Genetics Department; 2000.
36. Information, N. C. f. B.; 2002.
37. Rakic, J. M.; Lambert, V.; Deprez, M.; Foidart, J. M.; Noel, A.; Munaut, C. Estrogens reduce the expression of YKL-40 in the retina: Implications for eye and joint diseases. Invest. Ophthalmol. Vis. Sci. 44:1740-1746; 2003.
38. Priglinger, S. G.; May, C. A.; Neubauer, A. S.; Alge, C. S.; Schonfeld, C. L.; Kampik, A.; Welge-Lussen, U. Tissue transglutaminase as a modifying enzyme of the extracellular matrix in PVR membranes. Invest. Ophthalmol. Vis. Sci. 44:355-364; 2003.
39. Yamamura, M.; Uyemura, K.; Deans, R. J.; Weinberg, K.; Rea, T. H.; Bloom, B. R.; Modlin, R. L. Defining protective responses to pathogens: Cytokine profiles in leprosy lesions. Science 254:277-279; 1991.
40. Livak, K. J.; Schmittgen, T. D. Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) method. Methods 25:402-408; 2001.
41. Izawa, J. I.; Moussa, M.; Cherian, M. G.; Doig, G.; Chin, J. L. Metallothionein expression in renal cancer. Urology 52:767-772; 1998.
42. Bonaldo, M. F.; Lennon, G.; Soares, M. B. Normalization and subtraction: Two approaches to facilitate gene discovery. Genome Res. 6:791-806; 1996.
43. Galaktionov, K.; Lee, A. K.; Eckstein, J.; Draetta, G.; Meckler, J.; Loda, M.; Beach, D. CDC25 phosphatases as potential human oncogenes. Science 269:1575-1577; 1995.
44. Cope, A. P.; Patel, S. D.; Hall, F.; Congia, M.; Hubers, H. A.; Verheijden, G. F.; Boots, A. M.; Menon, R.; Trucco, M.; Rijnders, A. W.; Sonderstrup, G. T cell responses to a human cartilage autoantigen in the context of rheumatoid arthritis-associated and nonassociated HLA-DR4 alleles. Arthritis Rheum. 42:1497-1507; 1999.
45. Vos, K.; Miltenburg, A. M.; van Meijgaarden, K. E.; van den Heuvel, M.; Elferink, D. G.; van Galen, P. J.; van Hogezand, R. A.; van Vliet-Daskalopoulou, E.; Ottenhoff, T. H.; Breedveld, F. C.; Boots, A. M.; de Vries, R. R. Cellular immune response to human cartilage glycoprotein-39 (HC gp-39)-derived peptides in rheumatoid arthritis and other inflammatory conditions. Rheumatology 39:1326-1331; 2000.
46. Kita, H.; Lian, Z. X.; Van de Water, J.; He, X. S.; Matsumura, S.; Kaplan, M.; Luketic, V.; Coppel, R. L.; Ansari, A. A.; Gershwin, M. E. Identification of HLA-A2-restricted CD8(+) cytotoxic T cell responses in primary biliary cirrhosis: T cell activation is augmented by immune complexes cross-presented by dendritic cells. J. Exp. Med. 195:113-123; 2002.
47. Backlund, J.; Carlsen, S.; Hoger, T.; Holm, B.; Fugger, L.; Kihlberg, J. ; Burkhardt, H.; Holmdahl, R. Predominant selection of T cells specific for the glycosylated collagen type II epitope (263-270) in humanized transgenic mice and in rheumatoid arthritis. Proc. Natl. Acad. Sci. USA 99:9960-9965; 2002.
48. Seigne, J.; Turner, J.; Diaz, J.; Hackney, J.; Pow-Sang, J.; Helal, M.; Lockhart, J.; Yu, H. A feasibility study of gene gun mediated immunotherapy for renal cell carcinoma. J. Urol. 162:1259-1263; 1999.
49. Tani, K.; Nakazaki, Y.; Hase, H.; Takahashi, K.; Azuma, M.; Ohata, J.; Kitamura, R.; Komine, F.; Oiwa, M.; Masunaga, A.; Maekawa, T.; Satoh, N.; Adachi, D.; Soda, Y.; Machida, U.; Endo, M.; Yamazaki, T.; Watari, K.; Tojo, A. ; Yamashita, N.; Tomikawa, S.; Eriguchi, M.; Hamada, H.; Wakumoto, Y.; Hanazawa, K.; Okumura, K. Progress reports on immune gene therapy for stage IV renal cell cancer using lethally irradiated granulocyte-macrophage colony-stimulating factor-transduced autologous renal cancer cells. Cancer Chemother. Pharmacol. 46:S73-76; 2000.
50. Withoff, S.; Glazenburg, K. L.; van Veen, M. L.; Kraak, M. M.; Hospers, G. A.; Storkel, S.; de Vries, E. G.; Wilschut, J.; Daemen, T. Replication-defective recombinant Semliki Forest virus encoding GM-CSF as a vector system for rapid and facile generation of autologous human tumor cell vaccines. Gene Ther. 8:1515-1523; 2001.
51. Kusumoto, M.; Umeda, S.; Ikubo, A.; Aoki, Y.; Tawfik, O.; Oben, R.; Williamson, S.; Jewell, W.; Suzuki, T. Phase 1 clinical trial of irradiated autologous melanoma cells adenovirally transduced with human GM-CSF gene. Cancer Immunol. Immunother. 50:373-381; 2001.
52. Chang, A. E.; Redman, B. G.; Whitfield, J. R.; Nickoloff, B. J.; Braun, T. M.; Lee, P. P.; Geiger, J. D.; Mule, J. J. A phase I trial of tumor lysate-pulsed dendritic cells in the treatment of advanced cancer. Clin. Cancer Res. 8:1021-1032; 2002.
53. Grabmaier, K.; Vissers, J. L.; De Weijert, M. C.; Oosterwijk-Wakka, J. C.; Van Bokhoven, A.; Brakenhoff, R. H.; Noessner, E.; Mulders, P. A.; Merkx, G.; Figdor, C. G.; Adema, G. J.; Oosterwijk, E. Molecular cloning and immunogenicity of renal cell carcinoma-associated antigen G250. Int. J. Cancer 85:865-870; 2000.
54. Grabmaier, K.; de Weijert, M.; Uemura, H.; Schalken, J.; Oosterwijk, E. Renal cell carcinoma-associated G250 methylation and expression: In vivo and in vitro studies. Urology 60:357-362; 2002.
55. Mazzocchi, A.; Melani, C.; Rivoltini, L.; Castelli, C.; Del Vecchio, M.; Lombardo, C.; Colombo, M. P.; Parmiani, G. Simultaneous transduction of B7-1 and IL-2 genes into human melanoma cells to be used as vaccine: Enhancement of stimulatory activity for autologous and allogeneic lymphocytes. Cancer Immunol. Immunother. 50:199-211; 2001.
56. Chakraborty, N. G.; Sporn, J. R.; Tortora, A. F.; Kurtzman, S. H.; Yamase, H.; Ergin, M. T.; Mukherji, B. Immunization with a tumor-cell-lysate-loaded autologous-antigen-presenting-cell-based vaccine in melanoma. Cancer Immunol. Immunother. 47:58-64; 1998.
57. Holmes, L. M., Li, J.; Sticca, R. P.; Wagner, T. E.; Wei, Y. A rapid, novel strategy to induce tumor cell-specific cytotoxic T lymphocyte responses using instant dendritomas. J. Immunother. 24:122-129; 2001.
58. Dieterich, W.; Ehnis, T.; Bauer, M.; Donner, P.; Volta, U.; Riecken, E. O.; Schuppan, D. Identification of tissue transglutaminase as the autoantigen of celiac disease. Nat. Med. 3:797-801; 1997.