Bayesian Mixture Model Analysis for Detecting Differentially Expressed Genes

Table 2

Numbers of genes assigned into each of the three clusters for six different methods of differential expression analysis. (The sum of each column within a method represents the true number of genes simulated from that cluster and the sum of each row represents the number of genes assigned into that cluster.)

Method	Estimate	True			Sum	Type I error
		Cluster 1	Cluster 2	Cluster 3
I	Cluster 1	20	1	0	21	0.002
	Cluster 2	0	958	0	958
	Cluster 3	0	1	20	21
II	Cluster 1	20	205	0	225	0.459
	Cluster 2	0	519	0	519
	Cluster 3	0	236	20	256
III	Cluster 1	0	0	0	0	0.033
	Cluster 2	0	928	0	928
	Cluster 3	20	32	20	72
IV	Cluster 1	20	37	0	57	0.073
	Cluster 2	0	890	0	890
	Cluster 3	0	33	20	53
V	Cluster 1	20	153	0	173	0.325
	Cluster 2	0	648	0	648
	Cluster 3	0	159	20	179
VI	Cluster 1	20	5	0	25	0.011
	Cluster 2	0	949	0	949
	Cluster 3	0	6	20	26
	Sum (method)	20	960	20	1000