A Haplotype Based Method for Genetic Disease Susceptibility Prediction

High-throughput single nucleotide polymorphism (SNP) genotyping technologies make massive genotype data, with a large number of individuals, publicly available. Accessibility of genetic data makes genome-wide association studies for complex diseases possible. The susceptibility to complex diseases can be predicted through the analysis of the genetic data and prospective patients can be helped to make informed decisions. With the development of DNA microarray technique, it is possible to access the human genetic information related to specific diseases, but most disease association studies are based on genotypes. This paper uses a combinatorial method to analyze the haplotype data for Crohn's disease and search disease-associated factors for given case/control samples. A Linear programming based method has been applied to publicly available genotype data on Crohn's disease for association study and achieved a promising result.