Final published version
Research output: Contribution to Journal/Magazine › Journal article › peer-review
Research output: Contribution to Journal/Magazine › Journal article › peer-review
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TY - JOUR
T1 - Haplotype association analysis of discrete and continuous traits using mixture of regression models
AU - Sham, Pak C.
AU - Rijsdijk, F. V.
AU - Knight, Jo
AU - Makoff, Andrew
AU - North, B.
AU - Curtis, D.
PY - 2004/3
Y1 - 2004/3
N2 - We present a regression-based method of haplotype association analysis for quantitative and dichotomous traits in samples consisting of unrelated individuals. The method takes account of uncertain phase by initially estimating haplotype frequencies and obtaining the posterior probabilities of all possible haplotype combinations in each individual, then using these as weights in a finite mixture of regression models. Using this method, different combinations of marker loci can be modeled, to find a parsimonious set of marker loci that are most predictive and therefore most likely to be closely associated with the a quantitative trait locus. The method has the additional advantage of being able to use individuals with some missing genotype data, by considering all possible genotypes at the missing markers. We have implemented this method using the SNPHAP and Mx programs and illustrated its use on published data on idiopathic generalized epilepsy.
AB - We present a regression-based method of haplotype association analysis for quantitative and dichotomous traits in samples consisting of unrelated individuals. The method takes account of uncertain phase by initially estimating haplotype frequencies and obtaining the posterior probabilities of all possible haplotype combinations in each individual, then using these as weights in a finite mixture of regression models. Using this method, different combinations of marker loci can be modeled, to find a parsimonious set of marker loci that are most predictive and therefore most likely to be closely associated with the a quantitative trait locus. The method has the additional advantage of being able to use individuals with some missing genotype data, by considering all possible genotypes at the missing markers. We have implemented this method using the SNPHAP and Mx programs and illustrated its use on published data on idiopathic generalized epilepsy.
KW - Chromosome Mapping
KW - Epilepsy, Generalized
KW - Gene Frequency
KW - Genetic Markers
KW - Genetics, Population
KW - Genotype
KW - Haplotypes
KW - Humans
KW - Logistic Models
KW - Mathematical Computing
KW - Models, Genetic
KW - Models, Statistical
KW - Phenotype
KW - Probability
KW - Quantitative Trait Loci
KW - Software
U2 - 10.1023/B:BEGE.0000013734.39266.a3
DO - 10.1023/B:BEGE.0000013734.39266.a3
M3 - Journal article
C2 - 14755185
VL - 34
SP - 207
EP - 214
JO - Behavior Genetics
JF - Behavior Genetics
SN - 0001-8244
IS - 2
ER -