Table 2.

Sensitivity and specificity of eQTL detection with different false discovery rates (FDR) threshold.

FDR	Sensitivity	Specificity	FN	FP
0.01	0.0808	0.9999842	1275	6314
0.05	0.0841	0.9999737	1271	10530
0.10	0.0859	0.9999657	1269	13734

This table shows the number of False Negative (FN) and False Positive (FP) eQTL associations at different FDR thresholds when n = 150 and k = 2. There is a huge increase of the FP eQTLs as the FDR cut-off is made less stringent, but only a modest decrease for the FN associations (+6).