A triple combination strategy of stratum matching, genomic controlling, and oligoset DNA pooling, is a viable method for testing marker-disease association, according to a new study by researchers at National Taiwan University (NTU). The study was published online on March 12 in PLoS ONE.
Conducted by Drs. Hsiao-Yuan Huang and Jui-Hsiang Lin, doctoral students at NTU, and their advisor Dr. Wen-Chung Lee, professor of Institute of Epidemiology and Preventive Medicine in the College of Public Health, this study proposed a permutation test for the triple combination strategy with oligoset DNA pooling.
Case-control association studies are prone to population stratification bias. A previous triple combination strategy, which combined stratum matching, genomic controlling, and multiple DNA pooling, can correct the bias and save genotyping cost. However, the researchers require preparing no less than 30 case-control pooling sets in totals, which still entails a cost. “In this study, the proposed permutation test has a type I error rate under control for oligoset DNA pooling studies – as few as 10 pooling sets suffice!” said Dr. Lee.
As shown in the paper, the all-in-one design by itself is a legitimate method for testing marker-disease association. For a researcher on a tight budget, the triple combination strategy with oligoset DNA pooling is a viable design option.