SEARCH

SEARCH BY CITATION

References

  • Anderson, E. C. & Slatkin, M. (2004) Population-genetic basis of haplotype blocks in the 5q31 region. Am J Hum Genet 74, 4049.
  • Botstein, D., White, R. L., Skolnick, M. & Davis, R. W. (1980) Construction of a genetic linkage map in man using restriction fragment length polymorphisms. Am J Hum Genet 32, 314331.
  • Brem, R. B. & Kruglyak, L. (2005) The landscape of genetic complexity across 5,700 gene expression traits in yeast. Proc Natl Acad Sci USA 102, 15721577.
  • Brem, R. B., Storey, J. D., Whittle, J. & Kruglyak, L. (2005) Genetic interactions between polymorphisms that affect gene expression in yeast. Nature 436, 701703.
  • Brem, R. B., Yvert, G., Clinton, R. & Kruglyak, L. (2002) Genetic dissection of transcriptional regulation in budding yeast. Science 296, 752755.
  • Chernoff, H., Lo, S. H. & Zheng, T. (2009) Discovering influential variables: A method of partitions. Ann Appl Stat 3, 13351369.
  • Colman-Lerner, A., Chin, T. E. & Brent, R. (2001) Yeast Cbk1 and Mob2 activate daughter-specific genetic programs to induce asymmetric cell fates. Cell 107, 739750.
  • Ding, K., Zhang, J., Zhou, K., Shen, Y. & Zhang, X. (2005) htSNPer1.0: Software for haplotype block partition and htSNPs selection. BMC Bioinformatics 6, 38.
  • Enyenihi, A. H. & Saunders, W. S. (2003) Large-scale functional genomic analysis of sporulation and meiosis in Saccharomyces cerevisiae. Genetics 163, 4754.
  • Gabriel, S. B., Schaffner, S. F., Nguyen, H., Moore, J. M., Roy, J., Blumenstiel, B., Higgins, J., Defelice, M., Lochner, A., Faggart, M., Liu-Cordero, S. N., Rotimi, C., Adeyemo, A., Cooper, R., Ward, R., Lander, E. S., Daly, M. J. & Altshuler, D. (2002) The structure of haplotype blocks in the human genome. Science 296, 22252229.
  • Geyer, C. J. (1991) Markov chain Monte Carlo maximum likelihood. In: Computing Science and Statistics: Proceedings of the 23rd Symposium on the Interface. (ed. E. M.Keramidas), pp. 156163. Fairfax Station : Interface Foundation.
  • Green, P. J. (1995) Reversible jump Markov chain Monte Carlo computation and Bayesian model determination. Biometrika 82, 711732.
  • International Hapmap Consortium. (2005) A haplotype map of the human genome. Nature 437, 12991320.
  • Jiang, C. & Zeng, Z. B. (1995) Multiple trait analysis of genetic mapping for quantitative trait loci. Genetics 140, 11111127.
  • Kim, S. & Xing, E. P. (2009) Statistical estimation of correlated genome associations to a quantitative trait network. PLoS Genet 5, e1000587.
  • Lander, E. S. & Botstein, D. (1989) Mapping mendelian factors underlying quantitative traits using RFLP linkage maps. Genetics 121, 185199.
  • Lee, S. I., Pe’er, D., Dudley, A. M., Church, G. M. & Koller, D. (2006) Identifying regulatory mechanisms using individual variation reveals key role for chromatin modification. Proc Natl Acad Sci USA 103, 1406214067.
  • Liu, J. S. (2001) Monte Carlo strategies in scientific computing. New York : Springer.
  • Lo, S. H. & Zheng, T. (2002) Backward Haplotype Transmission Association (BHTA) algorithm – a fast multiple-marker screening method. Hum Hered 53, 197215.
  • Manichaikul, A., Moon, J. Y., Sen, S., Yandell, B. S. & Broman, K. W. (2009) A model selection approach for the identification of quantitative trait loci in experimental crosses, allowing epistasis. Genetics 181, 10771086.
  • Morley, M., Molony, C. M., Weber, T. M., Devlin, J. L., Ewens, K. G., Spielman, R. S. & Cheung, V. G. (2004) Genetic analysis of genome-wide variation in human gene expression. Nature 430, 743747.
  • Paterson, A. H., Lander, E. S., Hewitt, J. D., Peterson, S., Lincoln, S. E. & Tanksley, S. D. (1988) Resolution of quantitative traits into Mendelian factors by using a complete linkage map of restriction fragment length polymorphisms. Nature 335, 721726.
  • Phillips, M. S., Lawrence, R., Sachidanandam, R., Morris, A. P., Balding, D. J., Donaldson, M. A., Studebaker, J. F., Ankener, W. M., Alfisi, S. V., Kuo, F. S., Camisa, A. L., Pazorov, V., Scott, K. E., Carey, B. J., Faith, J., Katari, G., Bhatti, H. A., Cyr, J. M., Derohannessian, V., Elosua, C., Forman, A. M., Grecco, N. M., Hock, C. R., Kuebler, J. M., Lathrop, J. A., Mockler, M. A., Nachtman, E. P., Restine, S. L., Varde, S. A., Hozza, M. J., Gelfand, C. A., Broxholme, J., Abecasis, G. R., Boyce-Jacino, M. T. & Cardon, L. R. (2003) Chromosome-wide distribution of haplotype blocks and the role of recombination hot spots. Nat Genet 33, 382387.
  • Przeworski, M. & Wall, J. D. (2001) Why is there so little intragenic linkage disequilibrium in humans? Genet Res 77, 143151.
  • Reich, D. E., Cargill, M., Bolk, S., Ireland, J., Sabeti, P. C., Richter, D. J., Lavery, T., Kouyoumjian, R., Farhadian, S. F., Ward, R. & Lander, E. S. (2001) Linkage disequilibrium in the human genome. Nature 411, 199204.
  • Ronald, J., Brem, R. B., Whittle, J. & Kruglyak, L. (2005) Local regulatory variation in Saccharomyces cerevisiae. PLoS Genet 1, e25.
  • Sax, K. (1923) The association of size differences with seed-coat pattern and pigmentation in PHASEOLUS VULGARIS. Genetics 8, 552560.
  • Schadt, E. E., Monks, S. A., Drake, T. A., Lusis, A. J., Che, N., Colinayo, V., Ruff, T. G., Milligan, S. B., Lamb, J. R., Cavet, G., Linsley, P. S., Mao, M., Stoughton, R. B. & Friend, S. H. (2003) Genetics of gene expression surveyed in maize, mouse and man. Nature 422, 297302.
  • Storey, J. D., Akey, J. M. & Kruglyak, L. (2005) Multiple locus linkage analysis of genomewide expression in yeast. PLoS Biol 3, e267.
  • Stumpf, M. P. & Goldstein, D. B. (2003) Demography, recombination hotspot intensity, and the block structure of linkage disequilibrium. Curr Biol 13, 18.
  • Wall, J. D. & Pritchard, J. K. (2003) Assessing the performance of the haplotype block model of linkage disequilibrium. Am J Hum Genet 73, 502515.
  • Wang, N., Akey, J. M., Zhang, K., Chakraborty, R. & 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, 12271234.
  • Yi, N., Shriner, D., Banerjee, S., Mehta, T., Pomp, D. & Yandell, B. S. (2007) An efficient Bayesian model selection approach for interacting quantitative trait loci models with many effects. Genetics 176, 18651877.
  • Yvert, G., Brem, R. B., Whittle, J., Akey, J. M., Foss, E., Smith, E. N., Mackelprang, R. & Kruglyak, L. (2003) Trans-acting regulatory variation in Saccharomyces cerevisiae and the role of transcription factors. Nat Genet 35, 5764.
  • Zhang, K., Akey, J. M., Wang, N., Xiong, M., Chakraborty, R. & Jin, L. (2003) Randomly distributed crossovers may generate block-like patterns of linkage disequilibrium: An act of genetic drift. Hum Genet 113, 5159.
  • Zhang, Y. & Liu, J. S. (2007) Bayesian inference of epistatic interactions in case-control studies. Nat Genet 39, 11671173.
  • Zhang, K., Qin, Z., Chen, T., Liu, J. S., Waterman, M. S. & Sun, F. (2005) HapBlock: Haplotype block partitioning and tag SNP selection software using a set of dynamic programming algorithms. Bioinformatics 21, 131134.
  • Zhang, W., Zhu, J., Schadt, E. E. & Liu, J. S. (2010) A Bayesian partition method for detecting pleiotropic and epistatic eQTL modules. PLoS Comput Biol 6, e1000642.
  • Zhu, J., Zhang, B., Smith, E. N., Drees, B., Brem, R. B., Kruglyak, L., Bumgarner, R. E. & Schadt, E. E. (2008) Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks. Nat Genet 40, 854861.
  • Zou, W. & Zeng, Z. B. (2009) Multiple interval mapping for gene expression QTL analysis. Genetica 137, 125134.