Construction of Transcript Maps by Somatic Cell/Radiation Hybrid Mapping

The Human Gene Map
  • Panagiotis Deloukas
Part of the Methods in Molecular Biology™ book series (MIMB, volume 175)


Systematic analysis of an organism’s transcript repertoire plays a key role in molecular genetics. The complexity of this task in higher organisms such as mammals is not only owing to the large number of expected genes (70,000–100,000) in humans (1) but also because gene coding regions are dispersed in the genome. In addition, only a subset of all transcripts is found in a given cell type, typically in the range of 10,000, and the presence of certain transcripts is subject to the developmental stage and/or the cell’s response to stimuli. The idea of a systematic approach to sequence large numbers of DNA (reverse transcribed from mRNA) clones as part of the Human Genome Project was conceived in 1990 at a time when significant advances in the field of DNA sequencing technology were in place but fewer than 2000 unique human gene sequences were available in the public databases. In 1991, Adams et al. (2) reported the generation of 174,172 human partial cDNA sequences and introduced the term expressed sequence tags (ESTs). Since then, other major sequencing efforts (3) have brought the number of human ESTs in databases (4) to more than 1,400,000.


Radiation Hybrid Polymerase Chain Reaction Protocol Radiation Hybrid Mapping Hybrid Cell Line Mapping Panel 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.


  1. 1.
    Fields, C., Adams, M. D., White, O., and Venter, C. J. (1994) How many genes in the human genome? Nature Genet. 7, 345–346.PubMedCrossRefGoogle Scholar
  2. 2.
    Adams, M. D., Kelley, J. M., Gocayne, et al. (1991) Complementary DNA sequencing: expressed sequence tags and human genome project. Science 252, 1651–1656.PubMedCrossRefGoogle Scholar
  3. 3.
    Hillier, L. D., Lennon, G., Becker, M., et al. (1996) Generation and analysis of 280,000 human expressed sequence tags. Genome Res. bd6, 807–828.CrossRefGoogle Scholar
  4. 4.
    dbEST release 061199; <>.
  5. 5.
    Collins, F. S. (1995) Positional cloning moves from perditional to traditional. Nature Genet. 9, 347–350.PubMedCrossRefGoogle Scholar
  6. 6.
    Houlgatte, R., Mariage-Samson, R., Duprat, S., Tessier, A., Bentolila, S., Lamy, B., and Auffray, C. (1995) The Genexpress Index: a resource for gene discovery and the genic map of the human genome. Genome Res. 5, 272–304.PubMedCrossRefGoogle Scholar
  7. 7.
    Adams, M. D., Kerlavage, A. R., Fleischmann, R. D., et al. (1995) Initial assessment of human gene diversity and expression patterns based upon 83 million nucleotides of cDNA sequence. Nature 377, 3–17.PubMedGoogle Scholar
  8. 8.
    Aaronson, J. S., Eckman, B., Blevins, R. A., Borkowski, J. A., Myerson, J., Imran, S., and Elliston, K. O. (1996) Toward the development of a gene index to the human genome: an assessment of the nature of high-throughput EST sequence data. Genome Res. 6, 829–845.PubMedCrossRefGoogle Scholar
  9. 9.
    Schuler, G. D. (1997) Pieces of the puzzle: expressed sequence tags and the catalog of human genes. J. Mol. Med. 75, 694–698.PubMedCrossRefGoogle Scholar
  10. 10.
    Walter, M. A., Spillett, D. J., Thomas, P., Weissenbach, J., and Goodfellow, P. N. (1994) A method for constructing radiation hybrid maps of whole genomes. Nature Genet. 7, 22–28.PubMedCrossRefGoogle Scholar
  11. 11.
    Stewart, E. A. and Cox, D. R. (1997) Radiation hybrid mapping, in Genome Mapping: A Practical Approach (Dear, P. H., ed.), IRL, Oxford, pp. 73–93.Google Scholar
  12. 12.
    Gyapay, G., Schmitt, K., Fizames, C., et al. (1996) A radiation hybrid map of the human genome. Hum. Mol. Genet. 5, 339–346.PubMedCrossRefGoogle Scholar
  13. 13.
    Stewart, E. A., McKusick, K. B., Aggarwal, A., et al. (1997) An STS-based radiation hybrid map of the human genome. Genome Res. 7, 422–433.PubMedGoogle Scholar
  14. 14.
    McCarthy, L. C., Terrett, J., Davis, M. E., et al. (1997) A first-generation whole genome-radiation hybrid map spanning the mouse genome. Genome Res. 7, 1153–1161.PubMedGoogle Scholar
  15. 15.
    Watanabe, T. K., Bihoreau, M.-T., McCarthy, L. C., et al. (1999) A radiation hybrid map of the rat genome containing 5,255 markers. Nature Genet. 22, 27–36.PubMedCrossRefGoogle Scholar
  16. 16.
    Hukriede, N. A., Joly, L., Tsang, M., et al. (1999) Radiation hybrid mapping of the zebrafish genome. Proc. Natl. Acad. Sci. 96, 9745_9750.PubMedCrossRefGoogle Scholar
  17. 17.
    Priat, C., Hitte, C., Vignaux, F., et al. (1998) A whole-genome radiation hybrid map of the dog genome. Genomics 54, 361–378.PubMedCrossRefGoogle Scholar
  18. 18.
    Deloukas, P., Schuler, G. D., Gyapay, G., et al. (1998) A Physical map of 30,000 human genes. Science 282, 744–746.PubMedCrossRefGoogle Scholar
  19. 19.
  20. 20.
    Matise, T. C., Perlin, M., and Chakravarti, A. (1994) Automated construction of genetic linkage maps using an expert system (MultiMap): a human genome linkage map. Nature Genet. 6, 384–390.PubMedCrossRefGoogle Scholar
  21. 21.
  22. 22.
    Lunetta, K. L., Boehnke, M., Lange, K., and Cox, D. R. (1996) Selected locus and multiple panel models for radiation hybrid mapping. Am. J. Hum. Genet. 59, 717–725.PubMedGoogle Scholar
  23. 23.
  24. 24.
    Slonim, D., Kruglyak, L., Stein, L., and Lander, E. (1997) Building human genome maps with radiation hybrids. J. Comput. Biol. 4, 487–504.PubMedCrossRefGoogle Scholar
  25. 25.
  26. 26.
    Soderlund, C., Lau, T., and Deloukas, P. (1998) Z extensions to the RHMAPPER package. BioInformatics 14, 538,539.CrossRefGoogle Scholar
  27. 27.
  28. 28.
    Dib, C., Faure, S., Fizames, C., et al. (1996) A comprehensive genetic map of the human genome based on 5,264 microsatellites. Nature 380, 152–154.PubMedCrossRefGoogle Scholar
  29. 29.
  30. 30.
    Durbin, R. and Mieg, J.-T. (1991) A C. elegans Database: documentation, code and data available from anonymous ftp servers at <>, <>, and <>.Google Scholar
  31. 31.

Copyright information

© Humana Press Inc., Totowa, NJ 2001

Authors and Affiliations

  • Panagiotis Deloukas
    • 1
  1. 1.The Sanger CentreCambridgeUK

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