Community assignments in identity by descent networks and genetic variant origination

A computer-implemented method for using a machine learning network clustering approach to determine a characterization of a target set of one or more genetic variants, the one or more genetic variants being one or more alleles at genetic loci, the computer-implemented method comprising:

• receiving a request to generate a report of the target set of the one or more genetic variants of a user of a computing system;
• identifying, in addition to the user, a plurality of reference individuals who are determined to be carriers of the one or more alleles corresponding to the one or more genetic variants specified in the target set;
• accessing DNA datasets of the plurality of reference individuals who are determined to be carriers of the one or more alleles corresponding to the one or more genetic variants;
• accessing DNA datasets of additional individuals, wherein at least one of the additional individuals shares Identity-by-Descent (IBD) with at least one of the plurality of reference individuals;
• performing the machine learning network clustering approach to identify a target cluster in an IBD network, the target cluster including at least one of the plurality of reference individuals and at least a plurality of the additional individuals, wherein the IBD network includes nodes and weighted edges, wherein a node represents the DNA dataset of one of the plurality of reference individuals or the DNA dataset of one of the additional individuals, and a weighted edge represents an IBD affinity between two DNA datasets represented by two nodes, and wherein the machine learning network clustering approach uses the IBD network as an input and iteratively partitions, based on the IBD affinity among the nodes, the IBD network into a plurality of clusters that include the target cluster;
• accessing genealogical data of the at least one of the plurality of reference individuals and the at least the plurality of the additional individuals who are included in the target cluster, the genealogical data for each reference individual or each additional individual comprising the characterization of the target set of the one or more genetic variants corresponding to the reference individual or the additional individual, wherein the genealogical data accessed includes the genealogical data of at least one of the additional individuals who is not a carrier;
• and
• generating a result summarizing the characterization of the target set of the one or more genetic variants based on the genealogical data.