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Table 2 The proportion of non-enriched GO terms and the log2 odds ratios of GO terms used in the simulation studies

From: Empirical Bayes estimation of posterior probabilities of enrichment: A comparative study of five estimators of the local false discovery rate

Number of GO terms

Π 0

log2 odds ratio (Ï• i )

 
  

0.5,

i = 1

2

50.0%

0,

i = 2

 

100.0%

0,

i = 1,2

  

3,

i = 1

 

50.0%

−3,

i = 2

  

0,

i = 3,4

  

0.5,

i = 1

4

75.0%

0,

i = 2,…,4

 

100.0%

0,

i = 1,…,4

  

(0.5 +1.5×(i − 1)),

i=1,2

 

50.0%

−(0.5 +1.5×(i − 3)),

i = 3,4

  

0,

i = 5,…,8

  

(0.5 +1.5×(i − 1)),

i = 1,2

 

62.5%

−(0.5 +1.5×(i − 2)),

i = 3

  

0,

i = 4,…,8

  

2,

i = 1

8

75.0%

−2,

i = 2

  

0,

i=3,…,8

  

2,

i = 1

 

87.5%

0,

i = 2,…,8

 

100.0%

0,

i = 1,…,8

  

(0.32 +0.64×(i − 1)),

i = 1,…,8

 

50.0%

−(0.32 +0.64×(i − 9)),

i = 9,…,16

  

0,

i = 17,…,32

  

(0.8 +0.8×(i − 1)),

i = 1,…,3

 

62.5%

−(0.8 +0.8×(i − 4)),

i = 4,…,6

  

0,

i = 7,…,32

  

(0.2 +1.6×(i − 1)),

i = 1,2

32

75.0%

−(0.2 +1.6×(i − 1)),

i = 3,4

  

0,

i = 5,…,32

  

1.8,

i = 1

 

87.5%

−1.8,

i = 2

  

0,

i = 3,…,32

 

100.0%

0,

i = 1,…,32

  1. Here, index i labels the GO term.