Detecting Rare Variants
The limitations of genome-wide association (GWA) studies that are based on the common disease common variants (CDCV) hypothesis have motivated geneticists to test the hypothesis that rare variants contribute to the variation of common diseases, i.e., common disease/rare variants (CDRV). The newly developed high-throughput sequencing technologies have made the studies of rare variants practicable. Statistical approaches to test associations between a phenotype and rare variants are quickly developing. The central idea of these methods is to test a set of rare variants in a defined region or regions by collapsing or aggregating rare variants, thereby improving the statistical power. In this chapter, we introduce these methods as well as their applications in practice.
Key wordsGWA Common disease common variants Common disease rare variants SNPs Haplotype Collapsing Aggregation
- 18.Madsen BE, Browning SR (2009) A Groupwise Association Test for Rare Mutations Using a Weighted Sum Statistic. PLoS Genet doi:10.1371/journal.pgen.1000384Google Scholar
- 23.Li X, Chen Y, Li J (2010) Detecting genome-wide haplotype polymorphism by combined use of mendelian constraints and local population structure. Pac Symp Biocomput 15: 348–358.Google Scholar