BMC Bioinformatics

Table 2 Powers across six DNA methylation differential analysis methods using β values for independent case

From: An evaluation of statistical methods for DNA methylation microarray data analysis

n	π ₁	Power
		Rank test	t-test	KS test	Permutation	Empirical Bayes	Bump hunting BH	Bump hunting q-value
3	0.01	0	0.0071	0	0	0.0714	0.0492	0.0612
	0.05	0	0.0126	0	0	0.2278	0.0715	0.0993
	0.10	0	0.0197	0	0	0.3577	0.1212	0.1722
	0.25	0	0.0516	0	0	0.5252	0.2612	0.3861
	0.50	0	0.1358	0	0	0.6417	0.4144	0.6450
	0.75	0	0.2371	0	0	0.7027	0.5096	0.8414
	0.90	0	0.2945	0	0	0.7274	0.5487	0.9378
6	0.01	0.0000	0.2713	0.0000	0.0000	0.5483	0.4025	0.4180
	0.05	0.0000	0.4708	0.0000	0.0000	0.6856	0.5847	0.6045
	0.10	0.5894	0.5773	0.5894	0.5894	0.7441	0.6660	0.6953
	0.25	0.6640	0.7069	0.5926	0.7053	0.8147	0.7671	0.8164
	0.50	0.7263	0.7890	0.5919	0.8078	0.8603	0.8274	0.9175
	0.75	0.7865	0.8297	0.8654	0.8422	0.8834	0.8544	0.9874
	0.90	0.7875	0.8475	0.8666	0.8589	0.8943	0.8648	0.9997
12	0.01	0.7541	0.7523	0.8053	0.0000	0.8085	0.7838	0.7883
	0.05	0.8722	0.8581	0.9179	0.8607	0.8926	0.8898	0.8975
	0.10	0.9082	0.8884	0.9164	0.8932	0.9149	0.9191	0.9304
	0.25	0.9423	0.9258	0.9672	0.9311	0.9433	0.9546	0.9773
	0.50	0.9643	0.9488	0.9674	0.9520	0.9607	0.9703	0.9990
	0.75	0.9714	0.9599	0.9893	0.9619	0.9689	0.9719	1.0000
	0.90	0.9753	0.9646	0.9895	0.9663	0.9725	0.9700	1.0000
24	0.01	0.9612	0.9252	0.9875	0.0000	0.9364	0.9403	0.9417
	0.05	0.9883	0.9714	0.9973	0.9673	0.9779	0.9902	0.9917
	0.10	0.9929	0.9809	0.9991	0.9810	0.9855	0.9970	0.9980
	0.25	0.9967	0.9899	0.9997	0.9900	0.9923	0.9999	1.0000
	0.50	0.9982	0.9940	0.9997	0.9941	0.9955	1.0000	1.0000
	0.75	0.9989	0.9957	0.9999	0.9958	0.9967	0.9999	1.0000
	0.90	0.9990	0.9965	0.9999	0.9965	0.9973	0.9994	1.0000

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ISSN: 1471-2105

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