Association testing in a linked region using large pedigrees

American Journal of Human Genetics

Volumn 76, Issue 3, 2005, Pages 538-542

  Cantor, Rita M ^a   Chen, Gary K ^a   Pajukanta, Päivi ^a   Lange, Kenneth ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; COMPUTER MODEL; FAMILIAL HYPERLIPEMIA; FINLAND; GENE FREQUENCY; GENE LINKAGE DISEQUILIBRIUM; GENETIC ASSOCIATION; GENETIC LINKAGE; GENETIC RECOMBINATION; HAPLOTYPE; HUMAN; PEDIGREE; PRIORITY JOURNAL;

EID: 13844262633     PISSN: 00029297     EISSN: None     Source Type: Journal    
DOI: 10.1086/428628     Document Type: Article

References (27)

1. Almasy L, Blangero J (2004) Exploring positional candidate genes: linkage conditional on measured genotype. Behav Genet 34:173-177
2. Elston RC, Stewart J (1971) A general model for the genetic analysis of pedigree data. Hum Hered 21:523-542
3. Fan R, Spinka C, Jin L, Sun Jung J (2005) Pedigree linkage disequilibrium mapping of quantitative trait loci. Eur J Hum Genet 13:216-231
4. Fan R, Xiong M (2003) Combined high resolution linkage and association mapping of quantitative trait loci. Eur J Hum Genet 11:125-137
5. Fulker DW, Cherny SS, Sham PC, Hewitt JK (1999) Combined linkage and association sib-pair analysis for quantitative traits. Am J Hum Genet 64:259-267
6. Epicenter Software (1996) Genetic Analysis Package (GAP) release 1.0, Pasadena, California
7. Göring HHH, Terwilliger JD (2000a) Linkage analysis in the presence of errors III: marker loci and their map as nuisance parameters. Am J Hum Genet 66:1298-1309
8. _ (2000b) Linkage analysis in the presence of errors IV: joint pseudomarker analysis of linkage and/or linkage disequilibrium on a mixture of pedigrees and singletons when the mode of inheritance cannot be accurately specified. Am J Hum Genet 66:1310-1327
9. Horvath S, Xu X, Laird NM (2001) The family based association test method: strategies for studying general genotype-phenotype associations. Eur J Hum Genet 9:301-306
10. Kruglyak L, Lander ES (1998) Faster multipoint linkage analysis using Fourier transforms. J Comput Biol 5:1-7
11. Lander ES, Green P (1987) Construction of multilocus genetic linkage maps in humans. Proc Natl Acad Sci USA 84:2363-2367
12. Lange K, Cantor R, Horvath S, Perola M, Sabatti C, Sinsheimer J, Sobel E (2001) Mendel version 4.0: a complete package for the exact genetic analysis of discrete traits in pedigree and population data sets. Am J Hum Genet Suppl 69:504
13. MacLean CJ, Morton NE, Yee S (1984) Combined analysis of genetic segregation and linkage under an oligogenic model. Comput Biomed Res 17:471-480
14. Martin ER, Bass MP, Hauser ER, Kaplan NL (2003) Accounting for linkage in family-based tests of association with missing parental genotypes. Am J Hum Genet 73:1016-1026
15. Monks SA, Kaplan NL, Weir BS (1998) A comparative study of sibship tests of linkage and/or association. Am J Hum Genet 63:1507-1516
16. Ott J (1974) Estimation of the recombination fraction in human pedigrees: efficient computation of the likelihood for human linkage studies. Am J Hum Genet 26:588-597
17. Pajukanta P, Lilja HE, Sinsheimer JS, Cantor RM, Lusis AJ, Gentile M, Duan XJ, Soro-Paavonen A, Naukkarinen J, Saarela J, Laakso M, Ehnholm C, Taskinen MR, Peltonen L (2004) Familial combined hyperlipidemia is associated with upstream transcription factor 1 (USF1). Nat Genet 36:371-376
18. Pajukanta P, Nuotio I, Terwilliger JD, Porkka KV, Ylitalo K, Pihlajamaki J, Suomalainen AJ, Syvanen AC, Lehtimaki T, Viikari JS, Laakso M, Taskinen MR, Ehnholm C, Peltonen L (1998) Linkage of familial combined hyperlipidaemia to chromosome 1q21-q23. Nat Genet 18:369-373
19. Posthuma D, de Geus EJ, Boomsma DI, Neale MC (2004) Combined linkage and association tests in MX. Behav Genet 34:179-196
20. Sinsheimer JS, Blangero J, Lange K (2000) Gamete-competition models. Am J Hum Genet 66:1168-1172
21. Sinsheimer JS, McKenzie CA, Keavney B, Lange K (2001) SNPs and snails and puppy dogs' tails: analysis of SNP data using the gamete competition model. Ann Hum Genet 65:483-490
22. Sham PC, Curtis D (1995) An extended transmission/disequilibrium test (TDT) for multi-allelic marker loci. Ann Hum Genet 59:323-336
23. Spielman RS, McGinnis RE, Ewens WJ (1993) Transmission test for linkage disequilibrium: the insulin gene region and insulin-dependent diabetes mellitus (IDDM). Am J Hum Genet 52:506-516
24. Terwilliger JD, Ott J (1992) A haplotype-based "haplotype relative risk" approach to detecting allelic associations. Hum Hered 42:337-346
25. Tienari PJ, Wikstrom J, Sajantila A, Palo J, Peltonen L (1992) Genetic susceptibility to multiple sclerosis linked to myelin basic protein gene. Lancet 340:987-991
26. Xiong M, Jin L (2000) Combined linkage and linkage disequilibrium mapping for genome screens. Genet Epidemiol 19:211-234
27. Zhao LP, Aragaki C, Hsu L, Quiaoit F (1998) Mapping of complex traits by single-nucleotide polymorphisms. Am J Hum Genet 63:225-240