Human Haplotype block sizes are negatively correlated with recombination rates

Genome Research

Volumn 14, Issue 7, 2004, Pages 1358-1361

  Greenwood, Tiffany A ^a   Rana, Brinda K ^a   Schork, Nicholas J ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALLELE; ARTICLE; CONTROLLED STUDY; CORRELATION ANALYSIS; GENE LINKAGE DISEQUILIBRIUM; GENE LOCUS; GENE MAPPING; GENE STRUCTURE; GENETIC ORGANIZATION; GENETIC PARAMETERS; GENETIC RECOMBINATION; HAPLOTYPE; HUMAN; HUMAN CELL; HUMAN GENOME; MICROSATELLITE MARKER; POPULATION GENETICS; PRIORITY JOURNAL;

ALLELES; CHROMOSOME MAPPING; GENETICS, POPULATION; GENOME, HUMAN; HAPLOTYPES; HUMANS; LINKAGE DISEQUILIBRIUM; MODELS, GENETIC; RECOMBINATION, GENETIC; SEX FACTORS;

EID: 3543052929     PISSN: 10889051     EISSN: None     Source Type: Journal    
DOI: 10.1101/gr.1540404     Document Type: Article

References (17)

1. Akey, J.M., Zhang, K., Xiong, M., and Jin, L. 2003. The effect of single nucleotide polymorphism identification strategies on estimates of linkage disequilibrium. Mol. Biol. Evol. 20: 232-242.
2. Cullen, M., Perfetto, S.P., Klitz, W., Nelson, G., and Carrington, M. 2002. High-resolution patterns of meiotic recombination across the human major histocompatibility complex. Am. J. Hum. Genet. 71: 759-776.
3. Daly, M.J., Rioux, J.D., Schaffner, S.F., Hudson, T.J., and Lander, E.S. 2001. High-resolution haplotype structure in the human genome. Nat. Genet. 29: 229-232.
4. Dawson, E., Abecasis, G.R., Bumpstead, S., Chen, Y., Hunt, S., Beare, D.M., Pabial, J., Dibling, T., Tinsley, E., Kirby, S., et al. 2002. A first-generation linkage disequilibrium map of human chromosome 22. Nature 418: 544-548.
5. Gabriel, S.B., Schaffner, S.F., Nguyen, H., Moore, J.M., Roy, J., Blumenstiel, B., Higgins, J., DeFelice, M., Lochner, A., Faggart, M., et at. 2002. The structure of haplotype blocks in the human genome. Science 296: 2225-2229.
6. Good, P. 1994. Permutation tests. Springer, New York.
7. Jeffreys, A.J., Kauppi, L., and Neumann, R. 2001. Intensely punctate meiotic recombination in the class II region of the major histocompatibility complex. Nat. Genet. 29: 217-222.
8. Johnson, G.C., Esposito, L., Barratt, B.J., Smith, A.N., Heward, J., Di Genova, G., Ueda, H., Cordell, H.J., Eaves, I.A., Dudbridge, F., et al. 2001. Haplotype tagging for the identification of common disease genes. Nat. Genet. 29: 233-237.
9. Kauppi, L., Sajantila, A., and Jeffreys, A.J. 2003. Recombination hotspots rather than population history dominate linkage disequilibrium in the MHC class II region. Hum. Mol. Genet. 12: 33-40.
10. Kong, A., Gudbjartsson, D.F., Sainz, J., Jonsdottir, G.M., Gudjonsson, S.A., Richardsson, B., Sigurdardottir, S., Barnard, J., Hallbeck, B., Masson, G., et al. 2002. A high-resolution recombination map of the human genome. Nat. Genet. 31: 241-247.
11. Lewontin, R. 1974. The genetic basis of evolutionary change. Columbia University Press, New York.
12. Lynn, A., Koehler, K.E., Judis, L., Chan, E.R., Cherry, J.P., Schwartz, S., Seftel, A., Hunt, P.A., and Hassold, T.J. 2002. Covariation of synaptonemal complex length and mammalian meiotic exchange rates. Science 296: 2222-2225.
13. Olivier, M., Bustos, V.I., Levy, M.R., Smick, G.A., Moreno, I., Bushard, J.M., Almendras, A.A., Sheppard, K., Zierten, D.L., Aggarwal, A., et al. 2001. Complex high-resolution linkage disequilibrium and haplotype patterns of single-nucleotide polymorphisms in 2.5 Mb of sequence on human chromosome 21. Genomics 78: 64-72.
14. Patil, N., Berno, A.J., Hinds, D.A., Barrett, W.A., Doshi, J.M., Hacker, C.R., Kautzer, C.R., Lee, D.H., Marjoribanks, C., McDonough, D.P., et al. 2001. Blocks of limited haplotype diversity revealed by high-resolution scanning of human chromosome 21. Science 294: 1719-1723.
15. Stumpf, M.P. 2002. Haplotype diversity and the block structure of linkage disequilibrium. Trends Genet. 18: 226-228.
16. Wang, N., Akey, J.M., Zhang, K., Chakraborty, R., and Jin, L. 2002. Distribution of recombination crossovers and the origin of haplotype blocks: The interplay of population history, recombination, and mutation. Am. J. Hum. Genet. 71: 1227-1234.
17. Zhang, K., Akey, J.M., Wang, N., Xiong, M., Chakraborty, R., and Jin, L. 2003. Randomly distributed crossovers may generate block-like patterns of linkage disequilibrium: An act of genetic drift. Hum. Genet. 113: 51-59.