Nondenaturing HPLC can be used to quantify PCR products. To allow for quantification of PCR products, the number of PCR cycles has to be around 25 so that the amount of product amplified is proportional to the initial gene copy number.
This type of analysis is very useful for detecting gene rearrangements such as deletions and insertions. Applications are exemplified by the detection of large deletions of the X-linked dystrophin gene in Duchene muscular dystrophy and the demonstration of exon deletions and duplications in the RB1 tumor suppressor gene.
With a wild type or normal chromatogram for comparison, homozygous deletion is indicated by the absence of a particular elution peak, and heterozygous deletion (or a carrier) by a peak of half height.