For example, if one wished to obtain a comprehensive assessment of an individual’s probability of developing type 2 diabetes by combining information from rare variants into some form of risk score, then based on these results one might use the MutationTaster prediction for GCK variants, AlphaMissense for HNF4A and CADD for HNF1A and for GIGYF1. It would be suboptimal to apply a single annotation method to characterise variants across multiple genes. The gene discussed is HNF1A; the disease is type 2 diabetes mellitus.