Case-control single-marker and haplotypic association analysis of pedigree data

Genetic Epidemiology

Volumn 28, Issue 2, 2005, Pages 110-122

  Browning, Sharon R ^a   Briley, J David ^a   Briley, Linda P ^a   Chandra, Gyan ^a   Charnecki, Jonathan H ^a   Ehm, Margaret G ^a   Johansson, Kelley A ^a   Jones, Brendan J ^a   Karter, Andrew J ^b   Yarnall, David P ^a   Wagner, Michael J ^a  

^a GLAXOSMITHKLINE   (United States)

^b KAISER PERMANENTE   (United States)

Author keywords

Linkage disequilibrium gene mapping; Pedigree data

Indexed keywords

PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR ALPHA;

ALLELE; ARTICLE; AUTOSOME; CASE CONTROL STUDY; CONTROLLED STUDY; GENE LINKAGE DISEQUILIBRIUM; GENE MAPPING; GENETIC SUSCEPTIBILITY; HAPLOTYPE; HUMAN; MATHEMATICAL ANALYSIS; NON INSULIN DEPENDENT DIABETES MELLITUS; PEDIGREE ANALYSIS; SAMPLE SIZE; SINGLE NUCLEOTIDE POLYMORPHISM; STATISTICAL ANALYSIS; X CHROMOSOME;

ALLELES; CASE-CONTROL STUDIES; CHROMOSOME MAPPING; DIABETES MELLITUS, TYPE 2; GENOTYPE; HAPLOTYPES; HUMANS; LINKAGE DISEQUILIBRIUM; MODELS, GENETIC; PEDIGREE; POLYMORPHISM, SINGLE NUCLEOTIDE;

EID: 19944431730     PISSN: 07410395     EISSN: None     Source Type: Journal    
DOI: 10.1002/gepi.20051     Document Type: Article

References (23)

1. Abecasis GR, Cherny SS, Cookson WO, Cardon LR. 2002. Merlin - rapid analysis of dense genetic maps using sparse gene flow trees. Nat Genet 30:91-101.
2. Abney M, McPeek MS, Ober C. 2000. Estimation of variance components of quantitative traits in inbred populations. Am J Hum Genet 66:629-650.
3. Bourgain C, Hoffjan S, Nicolae R, Newman D, Steiner L, Walker K, Reynolds R, Ober C, McPeek MS. 2003. Novel case-control test in a founder population identifies P-selectin as an atopy-susceptibility locus. Am J Hum Genet 73:612-626.
4. Excoffier L, Slatkin M. 1998. Incorporating genotypes of relatives into a test of linkage disequilibrium. Am J Hum Genet 62:171-180.
5. Harpending HC, Batzer MA, Gurven M, Jorde LB, Rogers AR, Sherry ST. 1998. Genetic traces of ancient demography. Proc Natl Acad Sci USA 95:1961-1967.
6. Hudson RR. 2002. Generating samples under a Wright-Fisher neutral model of genetic variation. Bioinformatics 18:337-338.
7. Ihaka R, Gentleman R. 1996. R: a language for data analysis and graphics. J Comput Graph Stat 5:299-314.
8. Karter AJ, Newman B, Rowell S, Harrison R, Birner CR, St. Pierre DJ, Joslyn G, Selby JV. 1998. Large-scale collection of family history data and recruitment of informative families for genetic analysis. J Registry Management 25:7-12.
9. Karter AJ, Ackerson LM, Darbinian JA, D'Agostino RB, Ferrara A, Liu J, Selby JV. 2001. Self-monitoring of blood glucose levels and glycemic control: the Northern California Kaiser Permanente Diabetes Registry. Am J Med 111:1-9.
10. Kruglyak L. 1999. Prospects for whole-genome linkage disequilibrium mapping of common disease genes. Nat Genet 22:139-144.
11. Lindsay BG. 1988. Composite likelihood methods. Contemp Math 80:221-239.
12. McPeek MS, Wu X, Ober C. 2004. Best linear unbiased allele-frequency estimation in complex pedigrees. Biometrics 60:359-367.
13. Newman DL, Abney M, McPeek MS, Ober C, Cox NJ. 2001. The importance of genealogy in determining genetic associations with complex traits. Am J Hum Genet 69:1146-1148.
14. O'Connell JR. 2000. Zero-recombinant haplotyping: applications to fine mapping using SNPs. Genet Epidemiol 19:64-70.
15. Risch N, Teng J. 1998. The relative power of family-based and case-control designs for linkage disequilibrium studies of complex diseases. I. DNA pooling. Genome Res 8:1273-1288.
16. Rohde K, Fuerst R. 2001. Haplotyping and estimation of haplotype frequencies for closely linked biallelic multilocus genetic phenotypes including nuclear family information. Hum Mutat 17:289-295.
17. Seltman H, Roeder K, Devlin B. 2003. Evolutionary-based association analysis using haplotype data. Genet Epidemiol 25:48-58.
18. Slager SL, Schaid DJ. 2001. Evaluation of candidate genes in case-control studies: a statistical method to account for related subjects. Am J Hum Genet 68:1457-1462.
19. Slager SL, Schaid DJ, Wang L, Thibodeau SN. 2003. Candidate-gene association studies with pedigree data: controlling for environmental covariates. Genetic Epidemiol 24:273-283.
20. Stumvoll M, Häring H. 2002. The peroxisome proliferator-activated receptor-γ2 Pro12Ala polymorphism. Diabetes 51:2341-2347.
21. Teng J, Risch N. 1999. The relative power of family-based and case-control designs for linkage disequilibrium studies of complex human diseases. II. Individual genotyping. Genome Res 9:234-241.
22. Tzeng JY, Devlin B, Wasserman L, Roeder K. 2003. On the identification of disease mutations by the analysis of haplotype similarity and goodness of fit. Am J Hum Genet 72:891-902.
23. Whittaker JC, Morris AP. 2001. Family-based tests of association and/or linkage. Am J Hum Genet 65:407-419.