Table 5.

Number of significant molecular features identified by ANOVA

Experiment	Kallisto	Kallisto (bias)	Salmon	Salmon (bias)	eXpress	eXpress (bias)	RSEM	RSEM (bias)	BaseEM	IntMTQ
E1	54	51	52	53	56	51	49	51	58	67
E2	895	893	869	885	903	910	857	881	1029	1190
E3	24	22	24	28	25	24	26	26	27	33

Note: A P-value cutoff 0.05 is applied for the molecular feature selection. The best results across the ten methods are bold.