Skip to main content

Table 2 Performance evaluation under Study I (Setting 2), (G=5000, 500 DE gene) #

From: Confident difference criterion: a new Bayesian differentially expressed gene selection algorithm with applications

Cut-off

Method

CDE

CCDE

CCEE

FNR

FPR

FDR

FNDR

γ 0

I

1086.5(22.5)

476.3(4.4)

3890.8(21.9)

0.045(0.009)

0.135(0.005)

0.561(0.009)

0.006(0.001)

(0.4)

II

1388.1(25.7)

499.7(0.5)

3611.6(25.7)

0.001(0.001)

0.197(0.006)

0.640(0.007)

0.000(0.000)

γ 0

I

656.8(13.8)

448.2(5.5)

4291.4(13.1)

0.104(0.011)

0.046(0.003)

0.317(0.014)

0.012(0.001)

(0.6)

II

749.3(15.0)

496.0(1.8)

4246.7(15.1)

0.008(0.004)

0.056(0.003)

0.338(0.014)

0.001(0.000)

FDR

I

357.1(8.7)

342.7(8.0)

4485.6(3.9)

0.315(0.016)

0.003(0.001)

0.040(0.011)

0.034(0.002)

(0.05)

II

480.7(10.5)

458.7(7.7)

4478.0(5.7)

0.083(0.015)

0.005(0.001)

0.046(0.011)

0.009(0.002)

 

SAM

326.9(12.9)

312.0(11.2)

4485.1(4.5)

0.376(0.022)

0.003(0.001)

0.045(0.013)

0.040(0.002)

 

LIMMA

329.5(51.9)

309.9(21.6)

4480.4(31.8)

0.380(0.043)

0.004(0.007)

0.053(0.045)

0.041(0.004)

 

EBA

190.4(6.7)

184.2(6.7)

4493.7(1.9)

0.632(0.013)

0.001(0.000)

0.033(0.010)

0.066(0.001)

  1. #Empirical estimates of the standard deviation were reported in the parentheses