Supplementary material for genome-wide genetic heterogeneity discovery with categorical covariates
نویسندگان
چکیده
S1 Supplementary Methods S3 S1.1 Implementation details . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . S3 S1.1.1 Filtering procedure used in FastCMH . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . S4 S1.2 Theoretical aspects of FastCMH . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . S5 S1.2.1 p-value for the CMH test . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . S5 S1.2.2 Minimum attainable p-value for the CMH test . . . . . . . . . . . . . . . . . . . . . . . . . S5 S1.2.3 Pruning condition for the CMH test . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . S5 S1.3 Generalization of the meta-marker . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . S8 S1.4 Extending FastCMH to use False Discovery Rate (FDR) control . . . . . . . . . . . . . . . . . . . . S9 S1.5 Burden tests . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . S11 S1.5.1 Simulated data . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . S11 S1.5.2 Human data: COPDGene . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . S12 S1.5.3 Plant data: Arabidopsis thaliana . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . S13
منابع مشابه
Genome-wide genetic heterogeneity discovery with categorical covariates
Motivation Genetic heterogeneity is the phenomenon that distinct genetic variants may give rise to the same phenotype. The recently introduced algorithm Fast Automatic Interval Search ( FAIS ) enables the genome-wide search of candidate regions for genetic heterogeneity in the form of any contiguous sequence of variants, and achieves high computational efficiency and statistical power. Although...
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