Genetic variant identification for complex disease

A computer program product for generating a list of genetic variants, the computer program product comprising:

• a computer readable storage medium readable by a processing circuit and storing program instructions for execution by the processing circuit for performing a method comprising:
• receiving genetic and biological data;
• using data mining to generate data patterns from the genetic and biological data;
• determining redescription distances between each of a plurality of data patterns, wherein the redescription distances are based upon a dissimilarity between lists of samples identified by each data pattern in the plurality of data patterns;
• generating redescription clusters of the patterns by applying single-linkage agglomerative binary clustering to the redescription distances;
• generating computational homology filtrations from the redescription distances by using a topological data analysis and homology groups comprising homology group elements based upon the computational homology filtrations;
• and
• using a discriminant analysis to generate a single nucleotide polymorphism combination list based upon the homology group elements and redescription clusters.

A processing system for generating a list of genetic variants, comprising:

• a processor in communication with one or more types of memory, the processor configured to:
• receive genetic and biological data;
• use data mining to generate data patterns from the genetic and biological data;
• determine redescription distances between each of a plurality of data patterns, wherein the redescription distances are based upon a dissimilarity between lists of samples identified by each data pattern in the plurality of data patterns;
• generate redescription clusters of the patterns by applying single-linkage agglomerative binary clustering to the redescription distances;
• generate computational homology filtrations from the redescription distances by using a topological data analysis and homology groups comprising homology group elements based upon the computational homology filtrations;
• and
• use a discriminant analysis to generate a single nucleotide polymorphism combination list based upon the homology group elements and redescription clusters.