Abstract
Test statistics that have been discussed in previous chapters can be used in the analysis of genome-wide association studies (GWAS). However, in addition to association analysis, GWAS contain other aspects. We give a brief introduction to GWAS in this chapter, including some aspects of quality control, genome-wide ranking, testing gene-environment and gene-gene interactions in GWAS, and replication studies. A short introduction to GWAS is first given. Some details of quality control, including testing HWE, are discussed next. For the analysis of GWAS, we consider genome-wide ranking with the trend test, Pearson’s test and two robust tests. Strategies for testing gene-environment and gene-gene interactions in GWAS are discussed. Finally, we review replication studies to confirm significant findings in GWAS.
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