Fig. 2: True positive detection rates under the “Epistasis” scenario. | Heredity

Fig. 2: True positive detection rates under the “Epistasis” scenario.

From: Assessment of two statistical approaches for variance genome-wide association studies in plants

Fig. 2

True positive detection rates for the simulated traits under the “Epistasis” scenario settings at a false discovery rate of 0.05 for A Arabidopsis at a sample size of N = 500, B maize at a sample size of N = 500, C Arabidopsis at a sample size of N = 1087, and D maize at a sample size of N = 2815. In each panel, two sets results are presented: one for the simulated trait with broad-sense heritability of set to H2 = 0.30, and one for those with H2 = 0.80. On each figure, the X-axis represents the pair of SNPs contributing to the three epistatic quantitative trait nucleotides (QTNs; e.g., “2a” denote the first SNP contributing to the second epistatic QTN). The Y-axis is the proportion of replications where a true positive is detected at least once. The error bars depict 95% confidence intervals, calculated using the method from Clopper and Pearson (1934). BFT Brown–Forsythe test, DGLM double generalized linear model, MLM unified mixed linear model.

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