Disequilibrium mapping: Composite likelihood for pairwise disequilibrium

Genomics

Volumn 36, Issue 1, 1996, Pages 1-16

  Devlin, B ^a   Risch, Neil ^b   Roeder, Kathryn ^a  

^a CARNEGIE MELLON UNIVERSITY   (United States)

^b STANFORD UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; CYSTIC FIBROSIS; DYSPLASIA; EVOLUTION; GENE LINKAGE DISEQUILIBRIUM; GENE LOCUS; GENE MAPPING; GENE MUTATION; GENETIC LINKAGE; MATHEMATICAL MODEL; POPULATION DYNAMICS; PRIORITY JOURNAL;

EID: 0030586840     PISSN: 08887543     EISSN: None     Source Type: Journal    
DOI: 10.1006/geno.1996.0419     Document Type: Article

References (28)

1. Allamand, V., Broux, O., Richard, I., Fougerousse, F., Chiannilkulchai, N., Bourg, N., Brenguier, L., Devaud, C., Pasturaud, P., Pereira de Souza, A., et al. (1995). Preferential localization of the limb-girdle muscular dystrophy type 2A gene in the proximal part of a 1-cM 15q15.1-q15.3 interval. Am. J. Hum. Genet. 56: 1417-1430.
2. Bengtsson, B. O., and Thomson, G. (1981). Measuring the strength of associations between HLA antigens and diseases. Tissue Antigens 18: 356-363.
3. Besag, J. E. (1974). Spatial interaction and the statistical analysis of lattice systems (with discussion). J. R. Statist. Soc. B 36: 192-236.
4. Clegg, M. T., Kidwell, J. F., Kidwell, M. G., and Daniel, N. J. (1976). Dynamics of correlated genetic systems. I. Selection in the region of the Glued locus of Drosophila melanogaster. Genetics 83: 793-810.
5. Crow, J. F., and Kimura, M. (1970). "An Introduction to Population Genetics Theory," Harper and Row, New York.
6. Devlin, B., and Risch, N. (1995). A comparison of linkage disequilibrium measures for fine scale mapping. Genomics 29: 311-322.
7. Dork, T., Neumann, T., Wulbrand, U., Wulf, B., Kälin, N., Maab, G., Krawczak, M., Guillermit, H., Ferec, C., Horn, G., et al. (1992). Intra-and extrangenic marker haplotypes of CFTR mutations in cystic fibrosis families. Hum. Genet. 88: 417-425.
8. Hästbacka, J., de la Chapelle, A., Kaitila, I., Sistonen, P., Weaver, A., and Lander, E. (1992). Linkage disequilibrium mapping in isolated founder populations: Diastrophic dysplasia in Finland. Nature Genet. 2: 204-211.
9. Hästbacka, J., de la Chapelle, A., Mahanti, M. M., Clines, G., Reeve-Daly, M. P., Daly, M., Hamilton, B. A., Kusumi, K., Trivedi, B., Weaver, A., Coloma, A., Lovett, M., Buckler, A., Kaitila, I., and Lander, E. S. (1994). The diastrophic dysplasia gene encodes a novel sulfate transporter: Positional cloning by fine-structure linkage disequilibrium mapping. Cell 78: 1073-1087.
10. Hill, W. G. (1974). Disequilibrium among several linked genes in finite populations. I. Mean changes in disequilibrium. Theor. Pop. Biol. 5: 366-392.
11. Hill, W. G., and Weir, B. S. (1994). Maximum-likelihood estimation of gene location by linkage disequilibrium. Am. J. Hum. Genet. 54: 705-714.
12. Jorde, L. B. (1995). Linkage disequilibrium as a gene mapping tool. Am. J. Hum. Genet. 56: 11-14.
13. Kaplan, N., and Weir, B. S. (1992). Expected behavior of conditional linkage disequilibrium. Am. J. Hum. Genet. 51: 333-343.
14. Kaplan, N., and Weir, B. S. (1995). Are moment bounds on the recombination fraction between a marker and a disease locus too good to be true? Allelic association mapping revisited for simple genetic diseases in the Finnish population. Am. J. Hum. Genet. 57: 1486-1498.
15. Kaplan, N., Hill, W. G., and Weir, B. S. (1995). Likelihood methods for locating disease genes in nonequilibrium populations. Am. J. Hum. Genet. 56: 18-32.
16. Kerem, B., Rommens, J. M., Buchanan, J. A., Markiewicz, D., Cox, T. K., Chakravarti, A., Buchwald, M., and Tsui, L-C. (1989). Identification of the cystic fibrosis gene: Genetic analysis. Science 245: 1073-1080.
17. Lehesjoki, A-E., Koskiniemi, M., Norio, R., Tirrito, S., Sistonen, P., Lander, E., and de la Chapelle, A. (1993). Localization of the EPM1 gene for progressive myoclonus epilepsy on chromosome 21: Linkage disequilibrium allows high resolution mapping. Hum. Mol. Genet. 2: 1229-1234.
18. Lewontin, R. C. (1964). The interaction of selection and linkage. I. General considerations; heterotic models. Genetics 49: 49-67.
19. Lindsay, B. G. (1988). Composite likelihood methods. Contemporary Mathematics 80: 221-239.
20. Luria, S. E., and Delbrück, M. (1943). Mutations of bacteria from virus sensitivity to virus resistance. Genetics 28: 491-511.
21. Lynn, A. H., Puffenberger, E. G., Kashuk, C., and Chakravarti, A. (1995). Multipoint linkage disequilibrium mapping using ancestral recombinants. Am. J. Hum. Genet. 57(3 Suppl.): A27.
22. Olson, J. M., and Wijsman, E. M. (1994). Design and sample-size considerations in the detection of linkage disequilibrium with a disease locus. Am. J. Hum. Genet. 55: 574-580.
23. Ozelius, L. J., Kramer, P. L., deLeon, D., Risch, N., Bressman, S. B., Schuback, D. E., Brin, M. F., Kwaitkowski, D. J., Burke, R. E., Gusella, J. F., Fahn, S., and Breakefield, X. O. (1992a). Strong allelic association between the torsion dystonia gene (DYT1) and loci in chromosome 9q34 in Ashkenazi Jews. Am. J. Hum. Genet. 50: 619-628.
24. Ozelius, L. J., Teitz, S. S., Buckler, A., Hervitt, J., Gasser, T., deLeon, D., Kramer, P. L., Risch, N., Bressman, S. B., Housman, D., Fahn, S., Gusella, J. F., and Breakefield, X. O. (1992b). Fine mapping of the torsion dystonia gene (DYT1) on 9q34 and evaluation of a candidate gene. Am. J. Hum. Genet. 51(Suppl.): A224.
25. Risch, N., deLeon, D., Ozelius, L. J., Kramer, P., Bressman, S., Kwiatkowski, D., Brin, M. F., et al. (1991). The genetics of torsion dystonia in Ashkenazi Jews. In "Molecular Genetics and Neuropsychiatric Disorders," p. A6, Scientific Program and Abstracts, Israel Ministry of Science and Technology.
26. Risch, N., deLeon, D., Ozelius, L. J., Kramer, P., Almasy, L., Singer, B., Fahn, S., Breakefield, X., and Bressman, S. (1995). Genetic analysis of idiopathic torsion dystonia in Ashkenazi Jews and the recent descent of Ashkenazim from a small founder population. Nature Genet. 9: 152-159.
27. Terwilliger, J. D. (1995). A powerful likelihood method for the analysis of linkage disequilibrium between trait loci and one or more polymorphic loci. Am. J. Hum. Genet. 56: 777-787.
28. Walter, S. D. (1975). The distribution of Levin's measure of attributable risk. Biometrika 62: 371-374.