publication . Article . Other literature type . 2000

Data mining applied to linkage disequilibrium mapping

Hannu Toivonen; Onkamo, P.; Vasko, K.; Ollikainen, V.; Sevon, P.; Mannila, H.; Herr, M.; Juha Kere;
  • Published: 01 Jan 2000
  • Country: Finland
Abstract
We introduce a new method for linkage disequilibrium mapping: haplotype pattern mining (HPM). The method, inspired by data mining methods, is based on discovery of recurrent patterns. We define a class of useful haplotype patterns in genetic case-control data and use the algorithm for finding disease-associated haplotypes. The haplotypes are ordered by their strength of association with the phenotype, and all haplotypes exceeding a given threshold level are used for prediction of disease susceptibility–gene location. The method is model-free, in the sense that it does not require (and is unable to utilize) any assumptions about the inheritance model of the disea...
Subjects
free text keywords: Articles, COMPLEX TRAITS, DISEASE GENES, LOCI, ASSOCIATION, POPULATIONS, LIKELIHOOD, EXAMPLE, FINLAND, TESTS, 311 Basic medicine, Genetics(clinical), Genetics, Data mining, computer.software_genre, computer, Haplotype, Data set, Statistical hypothesis testing, Linkage disequilibrium, Nonparametric statistics, Statistical model, Biology, Linkage Disequilibrium Mapping, Microsatellite
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