MutaGeneSys uses genome-wide genotype data to estimate individual disease susceptibility. It integrates three data sources: the International HapMap project (hapmap.org), whole-genome marker correlation data (description), and the Online Mendelian Inheritance in Man database (OMIM). MutaGeneSys accepts SNP data of individuals as query input and delivers disease susceptibility hypotheses even if the original set of typed SNPs is incomplete.It can produce population, genotyping technology, and confidence-specific predictions in interactive time.