Assessing population differentiation and isolation from single-nucleotide polymorphism data

Journal of the Royal Statistical Society. Series B: Statistical Methodology

Volumn 64, Issue 4, 2002, Pages 695-715

  Nicholson, George ^a   Smith, Albert V ^b   Jónsson, Frosti ^b   Gústafsson, Ómar ^b   Stefánsson, Kári ^b   Donnelly, Peter ^a  

^a UNIVERSITY OF OXFORD   (United Kingdom)

^b DECODE GENETICS   (Iceland)

Author keywords

Bottleneck; Coalescent; Demography; Fixation indices; Markov chain Monte Carlo methods; Population histories

Indexed keywords

EID: 0036435078     PISSN: 13697412     EISSN: None     Source Type: Journal    
DOI: 10.1111/1467-9868.00357     Document Type: Article

References (25)

1. Balding, D. and Nichols, R. (1995) A method for quantifying differentiation between populations at multi-allelic loci and its implications for investigating identity and paternity. Genetica, 96, 3-12.
2. _(1997) Significant genetic correlations among Caucasians at forensic DNA loci. Heredity, 78, 583-589.
3. Beaumont, M. (2001) Conservation genetics. In Handbook of Statistical Genetics (eds D. Balding, M. Bishop and C. Cannings), ch. 29, pp. 779-809. Chichester: Wiley.
4. Bowcock, A., Hebert, J., Mountain, J., Kidd, J., Rogers, J., Kidd, K. and Cavalli-Sforza, L. (1991a) Study of an additional 58 dna markers in five populations from four continents. Gene Geogr., 5, 151-173.
5. Bowcock, A., Kidd, J., Mountain, J., Hebert, J., Carotenuto, L., Kidd, K. and Cavalli-Sforza, L. (1991b) Drift, admixture, and selection in human evolution: a study with dna polymorphisms. Proc. Natn. Acad. Sci. USA, 88, 839-843.
6. Cockerham, C.C. and Weir, B.S. (1987) Correlations, descent measures: drift with migration and mutation. Proc. Natn. Acad. Sci. USA, 84, 8512-8514.
7. Ethier, S. and Kurtz, T. (1986) Markov Processes - Characterisation and Convergence. New York: Wiley.
8. Ewens, W. (1979) Mathematical Population Genetics. New York: Springer.
9. Excoffier, L. (2001) Analysis of population subdivision. In Handbook of Statistical Genetics (eds D. Balding; M. Bishop and C. Cannings), ch. 10, pp. 271-307. Chichester: Wiley.
10. Foreman, L.A., Smith, A.F.M. and Evett, I.W. (1997) Bayesian analysis of DNA profiling data in forensic identification applications (with discussion). J. R. Statist. Soc. A, 160, 429-469.
11. Gelman, A. and Rubin, D. (1992) Inference from iterative simulation using multiple sequences. Statist. Sci., 7, 457-511.
12. Hudson, R. (1998) Island models and the coalescent process. Molec. Ecol., 7, 413-418.
13. Lewontin, R. and Krakauer, J. (1973) Distribution of gene frequencey as a test of the theory of selective neutrality of polymorphisms. Genetics, 74, 175-195.
14. Nielsen, R. and Wakeley, J. (2001) Distinguishing migration from isolation: a markov chain monte carlo approach. Genetics, 158, 885-896.
15. Nordborg, M. (2001) Coalescent theory. In Handbook of Statistical Genetics (eds D. Balding, M. Bishop and C. Cannings), ch. 7, pp. 179-212. Chichester: Wiley.
16. Roeder, K., Escobar, M., Kadane, J. and Balazs, I. (1998) Measuring heterogeneity in forensic databases using hierarchical Bayes models. Biometrika, 85, 269-287.
17. Rousset, F. (2001) Inferences from spatial population genetics. In Handbook of Statistical Genetics (eds D. Balding, M. Bishop and C. Cannings), ch. 9, pp. 239-269. Chichester: Wiley.
18. Wakeley, J. (2001) The coalescent in an island model of population subdivision with variation among demes. Theor Popln Biol., 59, 133-144.
19. Wakeley, J., Nielsen, R., Liu-Cordero, S. and Ardlie, K. (2001) The discovery of single-nucleotide polymorprisms - and inferences about human demographic history. Am. J. Hum. Genet., 69, 1332-1347.
20. Wang, D., Fan, J., Siao, C., Berno, A., Young, P., Sapolsky, R., Ghandour, G., Perkins, N., Winchester, E., Spencer, J., Kruglyak, L., Stein, L., Hsie, L., Topaloglou, T., Hubbell, E., Robinson, E., Mittman, M., Morris, M., Shen, N., Kilburn, D., Rioux, J., Nusbaum, C., Rozen, S., Hudson, T. and Lander, E. (1998) Large-scale identification, mapping, and genotyping of single-nucleotide polymorphisms in the human genome. Science, 280, 1077-1082.
21. Weir, B. (1996) Genetic Data Analysis II. Sunderland: Sinauer.
22. ST ≠ 1/(4nm + 1). Heredity, 82, 117-125.
23. Wright, S. (1932) The roles of mutation, inbreeding, crossbreeding, and selection in evolution. In Proc. 6th Int. Congr Genetics, Menasha, vol. 1, pp. 356-366.
24. _(1951) The genetic structure of populations. Ann. Eugen., 15, 323-354.
25. _(1982) The shifting balances theory and macroevolution. A. Rev. Genet., 16, 1-19.