Skip to main content

Reconstruction of Geno-Phenotypic Evolutionary Sequences from Intracellular Patterns of Molecular Abnormalities in Human Solid Tumors

  • Protocol
Lung Cancer

Part of the book series: Methods in Molecular Medicineā„¢ ((MIMM,volume 75))

  • 640 Accesses

Abstract

In this chapter we describe an approach to the analysis of human tumors that emphasizes the performance of multiple simultaneous measurements on each of several thousand cells in each tumor sample. This approach can be implemented using such technologies as flow cytometry, laser-scanning cytometry, or high-resolution image analysis. Here we will focus on flow cytometry studies. Before proceeding to methodological details, we would like to consider the theoretical and practical advantages of performing cell-based measurements (vis a vis gel or array based measurements, for example), and in particular, the advantages of performing multiple measurements per cell.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Protocol
USD 49.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 89.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 119.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD 169.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

References

  1. Pauletti, G., Dandekar, S., Rong, H., Ramos, L., Peng, H., Seshadri, R., and Slamon, D. (2000) Assessment of methods for tissue-based detection of the HER-2/neu alteration in human breast cancer: a direct comparison of fluorescence in situ hybridization and immunohistochemistry. J. Clin. Oncol. 18, 3651ā€“3664.

    PubMedĀ  CASĀ  Google ScholarĀ 

  2. Slamon, D., Clark, G., Wong, S., Levin, W., Ullrich, A., and McGuire, W. (1987) Human breast cancer: Correlation of relapse and survival with amplification of the HER-2/neu oncogene. Science 235, 177ā€“182.

    ArticleĀ  PubMedĀ  CASĀ  Google ScholarĀ 

  3. Tsuda, H., Fukutomi, T., and Hirohashi, S. (1995) Pattern of gene alterations in intraductal breast neoplasms associated with histological type and grade. Clin. Cancer Res. 1, 261ā€“267.

    PubMedĀ  CASĀ  Google ScholarĀ 

  4. Courjal, F., Cuny, M., Simony-Lafontaine, J., Louason, G., Speiser, P., Zeillinger, R., et al. (1997) Mapping of DNA amplifications at 15 chromosomal localizations in 1875 breast tumors: definition of phenotypic groups. Cancer Res. 57, 4360ā€“4367.

    PubMedĀ  CASĀ  Google ScholarĀ 

  5. Shackney, S. and Shankey, T. (1997) Common patterns of genetic evolution in human solid tumors. Cytometry 29, 1ā€“27.

    ArticleĀ  PubMedĀ  CASĀ  Google ScholarĀ 

  6. Hovey, R., Chu, L., Balasz, M., DeVries, S., Moore, D., Sauter, G., et al. (1998) Genetic alterations in primary bladder cancers and their metastases. Cancer Res. 58, 3555ā€“3560.

    PubMedĀ  CASĀ  Google ScholarĀ 

  7. Lengauer, C., Kinzler, K., and Vogelstein, B. (1997) Genetic instability in colorectal cancers. Nature 386, 623ā€“627.

    ArticleĀ  PubMedĀ  CASĀ  Google ScholarĀ 

  8. Janocko, L., Brown, K., Smith, C., Gu, L., Pollice, A., Singh, S., et al. (2001) Distinctive patterns of Her-2/neu, c-myc, and cyclin D1 gene amplification by fluorescence in situ hybridization (FISH) in primary human breast cancers. Cytometry (Communications in Clinical Cytometry) 148, 136ā€“149.

    ArticleĀ  Google ScholarĀ 

  9. Shackney, S., Pollice, A., Smith, C., Alston, L., Singh, S., Janocko, L., et al. (1996) The accumulation of multiple genetic abnormalities in individual tumor cells in human breast cancers: Clinical prognostic implications. Cancer J. 2, 106ā€“113.

    CASĀ  Google ScholarĀ 

  10. Shackney, S., Pollice, A., Smith, C., Janocko, L., Sweeney, L., Brown, K., et al. (1998) Intracellular coexpression of epidermal growth factor receptor, Her-2/neu, and p21ras in human breast cancers: evidence for the existence of distinctive patterns of genetic evolution that are common to tumors from different patients. Clin. Cancer Res. 4, 913ā€“928.

    PubMedĀ  CASĀ  Google ScholarĀ 

  11. Smith, C., Pollice, A., Gu, L.-P., Brown, K., Singh, S., Janocko, L., et al. (2000) Correlations among p53, Her-2/neu, and ras overexpression and aneuploidy by multiparameter flow cytometry in human breast cancer: evidence for a common phenotypic evolutionary pattern in infiltrating ductal carcinomas. Clin. Cancer Res. 6, 112ā€“126.

    PubMedĀ  CASĀ  Google ScholarĀ 

  12. Fearon, E. and Vogelstein, A. (1990) A genetic model for colorectal tumorigenesis. Cell 61, 759ā€“767.

    ArticleĀ  PubMedĀ  CASĀ  Google ScholarĀ 

  13. Ried, T., Heselmeyer-Haddad, K., Blegen, H., Schrock, E., and Auer, G. (1999) Genomic changes defining the genesis, progression, and malignancy potential in solid human tumors: a phenotype/genotype correlation. Genes Chromosomes Cancer 25, 195ā€“204.

    ArticleĀ  PubMedĀ  CASĀ  Google ScholarĀ 

  14. Galipeau, P., Cowan, D., Sanchez, C., Barrett, M., Emond, M., Levine, D., et al. (1996) 17P (p53) allelic losses, 4N (G2/tetraploid) populations and progression to aneuploidy in Barrettā€™s esophagus. Proc. Natl. Acad. Sci. USA, 93, 7081ā€“7084.

    ArticleĀ  PubMedĀ  CASĀ  Google ScholarĀ 

  15. Blount, P., Galipeau, P., Sanchez, C., Neshat, K., Levine, D., Yin, J., et al. (1994) 17p allelic losses in diploid cells of patients with Barrettā€™s esophagus who develop aneuploidy. Cancer Res. 54, 2292ā€“2295.

    PubMedĀ  CASĀ  Google ScholarĀ 

  16. Barrett, M., Sanchez, C., Prevo, L., Wong, D., Galipeau, P., Paulson, T., et al. (1999) Evolution of neoplastic cell lineages in Barrett Oesophagus. Nature Genet. 22, 106ā€“109.

    ArticleĀ  PubMedĀ  CASĀ  Google ScholarĀ 

  17. Carder, P., Wyllie, A., Purdie, C., Morris, R., White, S., Piris, J., and Bird, C. (1993) Stabilized p53 facilitates aneuploid clonal divergence in colorectal cancer. Oncogene 8, 1397ā€“1401.

    PubMedĀ  CASĀ  Google ScholarĀ 

  18. Carder, P., Cripps, K., Morris, R., Collins, S., White, S., Bird, C., and Wyllie, A. (1995) Mutation of the p53 gene precedes aneuploid clonal divergence in colorectal carcinoma. Br. J. Cancer 71, 215ā€“218.

    ArticleĀ  PubMedĀ  CASĀ  Google ScholarĀ 

  19. Wistuba, I., Behrens, C., Milchgrub, S., Bryant, D., Hung, J., Minna, J., and Gazdar, A. (1999) Sequential molecular abnormalities are involved in the multistage development of squamous cell lung carcinoma. Oncogene 18, 643ā€“650.

    ArticleĀ  PubMedĀ  CASĀ  Google ScholarĀ 

  20. Hung, J., Kishimoto, Y., Sugio, K., Virmani, A., McIntire, D., Minna, J., and Gazdar, A. (1995) Allele-specific chromosome 3p deletions occur at an early stage in the pathogenesis of lung carcinoma. JAMA 273, 558ā€“563.

    ArticleĀ  PubMedĀ  CASĀ  Google ScholarĀ 

  21. Kishimoto, Y., Sugio, K., Hunbg, J., Virmani, A., McIntire, D., Minna, J., and Gazdar, A. (1995) allele-specific loss in chromosone 9p loci in preneoplastic lesions accompanying non-small-cell lung Cancers. J. Nat. Cancer Insti. 87, 1224ā€“1229.

    ArticleĀ  CASĀ  Google ScholarĀ 

  22. Belinsky, S., Nikula, K., Palmisano, W., Michels, R., Saccomano, G., Gabrielson, E., et al. (1998) Aberrant methylation of p16INK4a is an early event in lung cancer and a potential biomarker for early diagnosis. Proc. Natl. Acad. Sci. USA 95, 11891ā€“11896.

    ArticleĀ  PubMedĀ  CASĀ  Google ScholarĀ 

  23. Chung, G., Sundaresan, V., Hasleton, P., Rudd, R., Taylor, R., and Rabbitts, P. (1995) Sequential molecular genetic changes in lung cancer development. Oncogene 11, 2591ā€“2598.

    PubMedĀ  CASĀ  Google ScholarĀ 

  24. Shackney, S., Smith, C., Pollice, A., Levitt, M., Magovern, J., Wiechmann, R., et al. (1999) Genetic evolutionary staging of early non-small cell lung cancer: the p53ā†’HER-2/NEUā†’Ras sequence. J. Thorac. Cardiovasc. Surg. 118, 259ā€“269.

    ArticleĀ  PubMedĀ  CASĀ  Google ScholarĀ 

  25. Livingstone, L., White, A., Sprouse, J., Livanos, E., Jacks, T., and Tlsty, T. (1992) Altered cell cycle arrest and gene amplification potential accompany loss of wild-type p53. Cell 70, 923ā€“935.

    ArticleĀ  PubMedĀ  CASĀ  Google ScholarĀ 

  26. Theillet, C., Lidereau, R., Escot, C., Hutzell, P., Brunet, M., Gest, J., et al. (1986) Loss of a c-H-ras-1 allele and aggressive human primary breast carcinomas. Cancer Res. 46, 4776ā€“4781.

    PubMedĀ  CASĀ  Google ScholarĀ 

  27. Rochlitz, C., Scott, G., Dodson, J., Liu, E., Dollbaum, C., Smith, H., and Benz, C. (1989) Incidence of activating ras oncogene mutations associated with primary and metastatic human breast cancer. Cancer Res. 49, 357ā€“360.

    PubMedĀ  CASĀ  Google ScholarĀ 

  28. Pollice, A., McCoy, J., J. P., Shackney, S., Smith, C., Agarwal, J., Burholt, D., et al. (1992) Sequential paraformaldehyde and methanol fixation for simultaneous flow cytometric analysis of DNA, cell surface proteins, and intracellular proteins. Cytometry 13, 432ā€“444.

    ArticleĀ  PubMedĀ  CASĀ  Google ScholarĀ 

  29. Shackney, S., Berg G., Simon S., Cohen J., Amina S., Pommersheim W., et al. (1995) Origins and clinical implications of aneuploidy in early bladder cancer. Cytometry 22, 307ā€“316.

    ArticleĀ  PubMedĀ  CASĀ  Google ScholarĀ 

  30. Shackney, S., Singh, S., Yakulis, R., Smith, C., Pollice, A., Petruolo, S., Waggoner, A., and Hartsock, R. (1995) Aneuploidy in breast cancer: a fluorescence in situ hybridization study. Cytometry 22, 282ā€“291.

    ArticleĀ  PubMedĀ  CASĀ  Google ScholarĀ 

Download references

Author information

Authors and Affiliations

Authors

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

Ā© 2003 Humana Press Inc., Totowa, NJ

About this protocol

Cite this protocol

Shackney, S.E., Smith, C.A., Pollice, A.A., Silverman, J.F. (2003). Reconstruction of Geno-Phenotypic Evolutionary Sequences from Intracellular Patterns of Molecular Abnormalities in Human Solid Tumors. In: Driscoll, B. (eds) Lung Cancer. Methods in Molecular Medicineā„¢, vol 75. Humana Press, Totowa, NJ. https://doi.org/10.1385/1-59259-324-0:431

Download citation

  • DOI: https://doi.org/10.1385/1-59259-324-0:431

  • Publisher Name: Humana Press, Totowa, NJ

  • Print ISBN: 978-0-89603-920-9

  • Online ISBN: 978-1-59259-324-8

  • eBook Packages: Springer Protocols

Publish with us

Policies and ethics