Using alpha wisely: Improving power to detect multiple QTL

Statistical Applications in Genetics and Molecular Biology

Volumn 3, Issue 1, 2004, Pages

  Simonsen, Katy L ^a,b   McIntyre, Lauren M ^a  

^a PURDUE UNIVERSITY   (United States)

^b PURDUE UNIVERSITY   (United States)

Author keywords

Alpha spending; FDR; Order statistics; Power; QTL

Indexed keywords

ANALYTICAL ERROR; ARTICLE; GENOTYPE; METHODOLOGY; QUANTITATIVE TRAIT LOCUS; SIMULATION; STATISTICAL ANALYSIS;

EID: 14644436458     PISSN: 15446115     EISSN: 15446115     Source Type: Journal    
DOI: 10.2202/1544-6115.1023     Document Type: Article

References (20)

1. BENJAMINI, YOAV, & HOCHBERG, YOSEF. 1995. Controlling the false discovery rate: a practical and powerful approach to multiple testing. Journal of the Royal statistical society, series B, 51(1), 289-300.
2. BENJAMINI, YOAV, & YEKUTIELI, DANIEL. 2001. The control of the false discovery rate in multiple testing under dependency. Annals of statistics, 29(4), 1165-1188.
3. CASELLA, GEORGE, & BERGER, ROGER L. 1990. Statistical inference. Belmont, CA: Duxbury. pp. 232-233.
4. CHURCHILL, GARY A, & DOERGE, REBECCA W. 1994. Empirical threshold values for quantitative trait mapping. Genetics, 138(3), 963-971.
5. DEMETS, D L, & LAN, K K G. 1994. Interim analysis - the alpha-spending function-approach. Statistics in medicine, 13(13-14), 1341-1352.
6. DOERGE, REBECCA W, & CHURCHILL, GARY A. 1996. Permutation tests for multiple loci affecting a quantitative trait. Genetics, 142(1), 285-294.
7. EDGINGTON, EUGENE S. 1995. Randomization tests. 3rd edn. New York: Marcel Dekker, Inc.
8. FISHER, RONALD A. 1935. The design of experiments. 3rd edn. London: Oliver & Boyd Ltd.
9. GOOD, PHILLIP. 1994. Permutation tests. New York: Springer.
10. HOCHBERG, Y, & TAMHANE, A C. 1987. Multiple comparison procedures. New York: Wiley.
11. HOLLAND, J. B., PORTYANKO, V. A., HOFFMAN, D. L., & LEE, M. 2002. Genomic regions controlling vernalization and photoperiod responses in oat. Theoretical and applied genetics, 105, 113 - 126.
12. HSU, JASON C. 1996. Multiple comparisons. Theory and methods. Chapman & Hall.
13. LANDER, ERIC S., & BOTSTEIN, DAVID. 1989. Mapping Mendelian factors underlying quantitative traits using RFLP linkage maps. Genetics, 121(January), 185-199.
14. LEE, H., DEKKERS, J. C. M., SOLLER, M., MALEK, M, FERNANDO, R. L., & ROTH-SCHILD, M. F. 2002. Application of the false discovery rate to quantitative trait loci: interval mapping with multiple traits. Genetics, 161(2), 905-914.
15. MCINTYRE, LAUREN M, MARTIN, EDEN R, SIMONSEN, KATY L, & KAPLAN, NORMAN L. 2000. Circumventing multiple testing: A multilocus Monte Carlo approach to testing for association. Genetic epidemiology, 19(1), 18-29.
16. STOREY, JOHN D. 2002. A direct approach to false discovery rates. Journal of the Royal statistical society series B, 64(3), 479-498.
17. STOREY, JOHN D., & TIBSHIRANI, ROBERT. 2003. Statistical significance for genomewide studies. Proceedings of the national academy of sciences, USA, 100(16), 9440 - 9445.
18. WAYNE, MARTA L., & MCINTYRE, LAUREN M. 2002. Combining mapping and arraying: An approach to candidate gene identification. Proceedings of the national academy of sciences, USA, 99(23), 14903-14906.
19. WAYNE, MARTA L., JACOBS, L., KUNTZ, A., & SHEN, L.-Y. 2004. Fine scale mapping of QTL for ovariole number in drosophila melanogaster using deficiency mapping. In review.
20. WESTFALL, PETER H., & YOUNG, S. STANLEY. 1993. Resampling-based multiple testing: Examples and methods for p-value adjustment. Wiley, NY.