Composite interval mapping and multiple interval mapping: Procedures and guidelines for using windows QTL cartographer

Methods in Molecular Biology

Volumn 871, Issue , 2012, Pages 75-119

  Da Costa E Silva, Luciano ^a   Wang, Shengchu ^a   Zeng, Zhao Bang ^a  

^a NORTH CAROLINA STATE UNIVERSITY   (United States)

Author keywords

CIM; Inbred lines; MIM; QTL mapping; Windows QTL Cartographer

Indexed keywords

ARTICLE; GENE MAPPING; GENOME ANALYSIS; HUMAN; INBRED STRAIN; PRIORITY JOURNAL; QUANTITATIVE TRAIT LOCUS; ANIMAL; COMPUTER PROGRAM; DROSOPHILA MELANOGASTER; GENETICS; INBREEDING; STATISTICAL MODEL;

ANIMALS; DROSOPHILA MELANOGASTER; INBREEDING; MODELS, STATISTICAL; QUANTITATIVE TRAIT LOCI; SOFTWARE;

EID: 84865612570     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-61779-785-9_6     Document Type: Article

References (24)

1. Sax K (1923) Association of size differences with seed-coat pattern and pigmentation in Phaseolus vulgaris. Genetics 8:552-560
2. Soller M, Brody T (1976) On the power of experimental designs for the detection of linkage between marker loci and quantitative loci in crosses between inbred lines. Theor Appl Genet 47:35-39
3. Rebai A, Goffinet B, Mangin B (1995) Comparing power of different methods for QTL detection. Biometrics 51:87-99
4. Wu R, Ma C, Casella G (2007) Statistical genomics of quantitative traits: linkage, maps, and QTL. Springer, New York
5. Lander ES, BotsteinD(1989) Mappingmendelian factors underlying quantitative traits using RFLP linkage maps. Genetics 121:185-199
6. Zeng Z-B (1993) Theoretical basis for separation of multiple linked gene effects in mapping quantitative trait loci. Proc Natl Acad Sci U S A 90:10972-10976
7. Zeng Z-B (1994) Precision mapping of quantitative trait loci. Genetics 136:1457-1468
8. Kao CH, Zeng Z-B (1997) General formulas for obtaining the MLEs and the asymptotic variance-covariance matrix in mapping quantitative trait loci when using the EM algorithm. Biometrics 53:653-665
9. Kao CH, Zeng Z-B, Teasdale RD (1999) Multiple interval mapping for quantitative trait loci. Genetics 152:1203-1216
10. Zeng ZB, Kao CH, Basten CJ (1999) Estimating the genetic architecture of quantitative traits. Genet Res 74:279-289
11. Wang S, Basten CJ, Zeng Z-B (2010) Windows QTL Cartographer 2. 51. Department of Statistics, North Carolina State University, Raleigh
12. Weber K, Eisman R, Higgins S, Morey L, Patty A, Tausek M, Zeng Z-B (2001) An analysis of polygenes affecting wing shape on chromosome 2 in Drosophila melanogaster. Genetics 159:1045-1057
13. Zeng Z-B, Wang T, Zou W (2005) Modeling quantitative trait loci and interpretation of models. Genetics 169:1711-1725
14. Churchill GA, Doerge RW (1994) Empirical threshold values for quantitative trait mapping. Genetics 138:963-971
15. Doerge RW, Churchill GA (1996) Permutation tests for multiple loci affecting a quantitative character. Genetics 142:285-294
16. Kao C, Zeng Z-B (2002) Modeling epistasis of quantitative trait loci using Cockerham's model. Genetics 160:1243-1261
17. Zou F, Fine JP, Hu J, Lin DY (2004) An efficient resampling method for assessing genome-wide statistical significance in mapping quantitative trait loci. Genetics 168: 2307-2316
18. E Silva LDC (2010) Multiple trait multiple interval mapping of quantitative trait loci from inbred line crosses. Department of Statistics, North Carolina State University, Raleigh
19. Chang MN, Wu R, Wu SS, Casella G (2009) Score statistics for mapping quantitative trait loci. Stat Appl Genet Mol Biol 8:1-35
20. Cox DR, Hinkley DV (1974) Theoretical statistics. Chapman and Hall, London
21. E Silva LDC, Zeng Z-B (2010) Current progress on statistical methods for mapping quantitative trait loci from inbred line crosses. J Biopharm Stat 20:454-481
22. Akaike H (1969) A method of statistical identification of discrete time parameter linear systems. Ann Inst Statist Math 21:243-247
23. Schwarz G (1978) Estimating the dimension of a model. Ann Statist 6:461-464
24. Wang S, Basten CJ, Zeng Z-B (2007) Windows QTL Cartographer 2. 0 user manual. Department of Statistics, North Carolina State University, Raleigh