Single nucleotide polymorphisms (SNPs) are commonly studied for their contribution to genetic variation and disease. In this article, Bruzzone et al. present a novel method for evaluating SNPs in a fast, high-throughput protocol. The protocol relies on careful primer design, and a “cloning fragment length double-stranded DNA control template” to verify the identity of homozygous peaks in the melt-curve analysis for SNP detection. Sequence-verified gBlocks® Gene Fragments were an ideal solution for the melt-curve controls in this study, and were central to the SNP analysis.