Modeling X-linked ancestral origins in multiparental populations

G3: Genes, Genomes, Genetics

Volumn 5, Issue 5, 2015, Pages 777-801

  Zheng, Chaozhi ^a  

^a WAGENINGEN UNIVERSITY   (Netherlands)

Author keywords

Advanced intercross lines (AIL); Collaborative cross (CC); Diversity outcross (DO); Drosophila synthetic population resource (DSPR); Map expansion; MPP; Multiparent advanced generation inter cross (MAGIC); Multiparental populations

Indexed keywords

ADVANCED INTERCROSS LINE; ARTICLE; AUTOSOME; CHROMOSOME MAP; COLLABORATIVE CROSS; DIVERSITY OUTCROSS; DROSOPHILA; DROSOPHILA SYNTHETIC POPULATION RESOURCE; GENE LOCUS; GENETIC DISTANCE; GENETIC RECOMBINATION; GENOME; HAPLOTYPE; HETEROGENEOUS STOCK; HIDDEN MARKOV MODEL; NONHUMAN; PLESIOMORPHY; POPULATION SIZE; QUANTITATIVE TRAIT LOCUS MAPPING; X CHROMOSOME; ALGORITHM; BIOLOGICAL MODEL; CHROMOSOMAL MAPPING; MARKOV CHAIN; POPULATION GENETICS; QUANTITATIVE TRAIT LOCUS; X CHROMOSOMAL INHERITANCE;

ALGORITHMS; CHROMOSOME MAPPING; GENES, X-LINKED; GENETICS, POPULATION; MARKOV CHAINS; MODELS, GENETIC; QUANTITATIVE TRAIT LOCI;

EID: 84929935352     PISSN: None     EISSN: 21601836     Source Type: Journal    
DOI: 10.1534/g3.114.016154     Document Type: Article

References (21)

1. Broman, K., 2005 The genomes of recombinant inbred lines. Genetics 169: 1133-1146.
2. Broman, K. W., 2012a Genotype probabilities at intermediate generations in the construction of recombinant inbred lines. Genetics 190: 403-412.
3. Broman, K. W., 2012b Haplotype probabilities in advanced intercross populations. G3 (Bethesda) 2: 199-202.
4. Chapman, N., and E. Thompson, 2003 A model for the length of tracts of identity by descent in finite random mating populations. Theor. Popul. Biol. 64: 141-150.
5. Churchill, G., D. Airey, H. Allayee, J. Angel, A. Attie et al., 2004 The collaborative cross, a community resource for the genetic analysis of complex traits. Nat. Genet. 36: 1133-1137.
6. Darvasi, A., and M. Soller, 1995 Advanced intercross lines, an experimental population for fine genetic-mapping. Genetics 141: 1199-1207.
7. Fisher, R., 1949 The Theory of Inbreeding. Oliver and Boyd, London.
8. Fisher, R., 1954 A fuller theory of junctions in inbreeding. Heredity 8: 187-197.
9. Haldane, J., and C. Waddington, 1931 Inbreeding and linkage. Genetics 16: 357-374.
10. Johannes, F., and M. Colome-Tatche, 2011 Quantitative epigenetics through epigenomic perturbation of isogenic lines. Genetics 188: 215-227.
11. King, E. G., S. J. Macdonald, and A. D. Long, 2012 Properties and power of the Drosophila Synthetic Population Resource for the routine dissection of complex traits. Genetics 191: 935-949.
12. Liu, E. Y., Q. Zhang, L. McMillan, F. Pardo-Manuel de Villena, and W. Wang, 2010 Efficient genome ancestry inference in complex pedigrees with inbreeding. Bioinformatics 26: i199-i207.
13. Liu, S., S. Kowalski, T. Lan, I. Feldmann, and A. Paterson, 1996 Genomewide high-resolution mapping by recurrent intermating using Arabidopsis thaliana as a model. Genetics 142: 247-258.
14. MacLeod, A. K., C. S. Haley, and J. A. Woolliams, 2005 Marker densities and the mapping of ancestral junctions. Genet. Res. 85: 69-79.
15. Martin, O. C., and F. Hospital, 2011 Distribution of parental genome blocks in recombinant inbred lines. Genetics 189: 645-654.
16. Ming, R., and P. H. Moore, 2007 Genomics of sex chromosomes. Curr. Opin. Plant Biol. 10: 123-130.
17. Mott, R., C. Talbot, M. Turri, A. Collins, and J. Flint, 2000 A method for fine mapping quantitative trait loci in outbred animal stocks. Proc. Natl. Acad. Sci. USA 97: 12649-12654.
18. Svenson, K. L., D. M. Gatti, W. Valdar, C. E. Welsh, R. Y. Cheng et al., 2012 High-resolution genetic mapping using the mouse diversity outbred population. Genetics 190: 437-447.
19. Weller, J., and M. Soller, 2004 An analytical formula to estimate confidence interval of qtl location with a saturated genetic map as a function of experimental design. Theor. Appl. Genet. 109: 1224-1229.
20. Winkler, C., N. Jensen, M. Cooper, D. Podlich, and O. Smith, 2003 On the determination of recombination rates in intermated recombinant inbred populations. Genetics 164: 741-745.
21. Zheng, C. Z., M. P. Boer, and F. A. van Eeuwijk, 2014 A general modeling framework for genome ancestral origins in multiparental populations. Genetics 198: 87-101.