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Table 3 The P-values of some functional modules identified by ADM algorithm

From: Dynamic identifying protein functional modules based on adaptive density modularity in protein-protein interaction networks

Dataset

ID

P-value

Cluster frequency

Gene Ontology term

 

1

2.28E-63

40 out of 62 genes, 64.5%

ribosomal large subunit biogenesis

Gavin

2

6.73E-40

30 out of 46 genes, 65.2%

mitochondrial translation

 

3

1.58E-37

16 out of 28 genes, 57.1%

tRNA transcription from RNA polymerase III promoter

 

4

2.03E-35

26 out of 38 genes, 68.4%

mitochondrial translation

 

5

2.42 E -33

14 out of 22 genes, 63.6%

nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5'

 

6

4.45 E -32

12 out of 15 genes, 80.0%

proteasomal ubiquitin-independent protein catabolic process

 

7

4.89 E -32

14 out of 21 genes, 66.7%

mRNA polyadenylation

 

8

1.43 E -31

20 out of 24 genes, 83.3%

mRNA splicing, via spliceosome

 

9

1.23 E -28

25 out of 25 genes, 100.0%

transcription from RNA polymerase II promoter

 

10

3.91 E -28

22 out of 24 genes, 91.7%

mRNA metabolic process

Krogan_extended

1

2.87 E -43

30 out of 40 genes, 75.0%

mitochondrial translation

 

2

6.13 E -40

17 out of 28 genes, 60.7%

chromatin disassembly

 

3

5.52 E -32

23 out of 36 genes, 63.9%

mRNA splicing, via spliceosome

 

4

1.68 E -26

14 out of 32 genes, 43.8%

rRNA catabolic process

 

5

2.81 E -26

16 out of 31 genes, 51.6%

histone acetylation

 

6

3.38 E -23

40 out of 66 genes, 60.6%

transcription, DNA-dependent

 

7

3.82 E -23

40 out of 66 genes, 60.6%

RNA biosynthetic process

 

8

1.24 E -21

11 out of 25 genes, 44.0%

mRNA polyadenylation

 

9

1.31 E -21

22 out of 35 genes, 62.9%

mRNA metabolic process

 

10

1.18 E -18

9 out of 20 genes, 45.0%

negative regulation of chromatin silencing at telomere