COMPUTER-IMPLEMENTED METHOD AND SYSTEM FOR DETECTING INTERACTING DNA LOCI

摘要

A computer method of detecting interacting DNA loci by constructing a contingency table from samples of a first trait and samples of a second trait. The samples of the first and second trait are associated with one of a plurality of genotype calls, each relating to an interaction between multiple DNA loci. The contingency table includes frequencies of each genotype call in the samples. Based on the contingency table, measuring the association between the plurality of genotype calls and the first and second traits. Classifying the genotype calls into a first group that is statistically associated with the first trait and a second group that is statistically associated with the second trait.

主权项

1. A computer-implemented method for detecting interacting DNA loci, the method comprising:
(a) constructing a contingency table from samples of a first trait and samples of a second trait, wherein the samples of the first trait and the samples of the second trait are each associated with one of a plurality of genotype calls each relating to an interaction between multiple DNA loci, and wherein the contingency table includes frequencies of each genotype call in the samples of the first trait and in the samples of the second trait; (b) based on the contingency table, determining measures of association between the plurality of genotype calls, and the first trait or second trait; and (c) using the measures of association and a binary classification rule, classifying the plurality of genotype calls into (i) a first group of genotype calls that is statistically significantly associated with the first trait, and (ii) a second group of genotype calls that is statistically significantly associated with the second trait.