Using linkage genome scans to improve power of association in genome scans

American Journal of Human Genetics

Volumn 78, Issue 2, 2006, Pages 243-252

  Roeder, Kathryn ^a   Bacanu, Silvi Alin ^b,c   Wasserman, Larry ^a   Devlin, B ^b  

^a CARNEGIE MELLON UNIVERSITY   (United States)

^b UNIVERSITY OF PITTSBURGH SCHOOL OF MEDICINE   (United States)

^c GLAXOSMITHKLINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; GENETIC ANALYSIS; GENETIC ASSOCIATION; GENETIC LINKAGE; GENETIC MARKER; GENETIC MODEL; GENETIC POLYMORPHISM; GENETIC VARIABILITY; GENOME ANALYSIS; GENOTYPE; LINKAGE ANALYSIS; MARKER GENE; MOLECULAR GENETICS; NONHUMAN; PRIORITY JOURNAL; SAMPLING; STATISTICAL ANALYSIS;

EID: 31544449191     PISSN: 00029297     EISSN: None     Source Type: Journal    
DOI: 10.1086/500026     Document Type: Article

References (27)

1. Bacanu S-A (2005) Robust estimation of critical values for genome scans to detect linkage. Genet Epidemiol 28:24-32
2. Benjamini Y, Hochberg Y (1995) Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc B 57:289-300
3. - (1997) Multiple hypothesis testing with weights. Scand J Stat 24:407-418
4. Devlin B, Roeder K, Wasserman L (2003a) Analysis of multilocus models of association. Genet Epidemiol 25:36-47
5. - (2003b) False discovery or missed discovery? Heredity 91:537-538
6. Efron B, Storey J, Tusher VG, Tibshirani R (2001) Empirical Bayes analysis of a microarray experiment. J Am Stat Assoc 96:1151-1160
7. Efron B, Tibshirani R (2002) Empirical Bayes methods and false discovery rates for microarrays. Genet Epidemiol 23:70-86
8. Genovese CR, Roeder K, Wasserman L. False discovery control with p-value weighting. Biometrika (in press)
9. Genovese CR, Wasserman L (2002) Operating characteristics and extensions of the false discovery rate procedure. J R Stat Soc B 64: 499-518
10. - (2003) Bayesian and frequentist multiple testing. In: Bernard JM, Bayarri MJ, Berger JO, Dawid AP, Heckerman D, Smith AFM, West M (eds) Bayesian Statistics. Vol 7. Oxford University Press, Oxford, United Kingdom, pp 145-161
11. Gudbjartsson DF, Jonasson K, Frigge ML, Kong A (2000) Allegro, a new computer program for multipoint linkage analysis. Nat Genet 25:12-13
12. Holm S (1979) A simple sequentially rejective multiple test procedure. Scand J Stat 6:65-70
13. Lander E, Kruglyak L (1995) Genetic dissection of complex traits: guidelines for interpreting and reporting linkage results. Nat Genet 11:241-247
14. Pfeiffer RM, Gail MH (2003) Sample size calculations for population- and family-based case-control association studies on marker genotypes. Genet Epidemiol 25:136-148
15. Rinaldo A, Bacanu SA, Devlin B, Sonpar V, Wasserman L, Roeder K (2005) Characterization of multilocus linkage disequilibrium. Genet Epidemiol 28:193-206
16. Risch N (1990) Linkage strategies for genetically complex traits. I. Multilocus models. Am J Hum Genet 46:222-228
17. Risch N, Merikangas K (1996) The future of genetic studies of complex human diseases. Science 273:1516-1517
18. Roeder K, Bacanu SA, Sonpar V, Zhang X, Devlin B (2005) Analysis of single-locus tests to detect gene/disease associations. Genet Epidemiol 28:207-219
19. Sabatti C, Service S, Freimer N (2003) False discovery rate in linkage and association genome screens for complex disorders. Genetics 164: 829-833
20. Satagopan JM, Elston RC (2003) Optimal two-stage genotyping in population-based association studies. Genet Epidemiol 25:149-157
21. Sobell JL, Heston LL, Sommer SS (1993) Novel association approach for determining the genetic predisposition to schizophrenia: case-control resource and testing of a candidate gene. Am J Med Genet 48:28-35
22. Storey JD (2002) A direct approach to false discovery rates. J R Stat Soc B 64:479-498
23. Storey JD, Taylor JE, Siegmund D (2004) Strong control, conservative point estimation, and simultaneous conservative consistency of false discovery rates: a unified approach. J R Stat Soc B 66:187-205
24. Storey JD, Tibshirani R (2003) Statistical significance for genomewide studies. Proc Natl Acad Sci USA 100:9440-9445
25. Terwilliger JD, Speer M, Ott J (1993) Chromosome-based method for rapid computer simulation in human genetic linkage analysis. Genet Epidemiol 10:217-224
26. Thomas DC, Haile RW, Duggan D (2005) Recent developments in genomewide association scans: a workshop summary and review. Am J Hum Genet 77:337-345
27. Venables WN, Ripley BD (2002) Modern applied statistics with S, 4th ed. Springer Verlag, New York