Table 3 STM clustering result on the yeast PPI dataset
From: A novel functional module detection algorithm for protein-protein interaction networks
| Â | Â | Â | Distribution | Â | Â | ||
|---|---|---|---|---|---|---|---|
Cluster | Size | Density | H | D | U | -Logp | Function |
1 | 214 | 0.019 | 24.7 | 69.6 | 5.6 | 43.9 | Nuclear transport |
2 | 188 | 0.015 | 69.1 | 25.0 | 5.8 | 36.4 | Cell cycle and DNA processing |
3 | 181 | 0.022 | 22.0 | 72.3 | 5.5 | 17.2 | Cytoplasmic and nuclear protein degradation |
4 | 170 | 0.028 | 46.4 | 42.9 | 10.5 | 31.6 | Transported compounds (substrates) |
5 | 131 | 0.028 | 37.4 | 55.7 | 6.8 | 28.6 | Vesicular transport (Golgi network, etc.) |
6 | 125 | 0.030 | 60.8 | 33.6 | 5.6 | 32.2 | tRNA synthesis |
7 | 113 | 0.027 | 19.4 | 71.6 | 8.8 | 11.8 | Actin cytoskeleton |
8 | 79 | 0.045 | 17.7 | 73.4 | 8.8 | 12.3 | Homeostasis of protons |
9 | 78 | 0.033 | 26.9 | 62.8 | 10.2 | 12.5 | Ribosome biogenesis |
10 | 76 | 0.041 | 38.1 | 59.2 | 2.6 | 20.2 | rRNA processing |
11 | 72 | 0.030 | 5.6 | 84.7 | 9.7 | 6.2 | Calcium binding |
12 | 68 | 0.064 | 66.1 | 25.0 | 8.8 | 44.5 | mRNA processing |
13 | 61 | 0.041 | 40.9 | 52.4 | 6.5 | 11.5 | Cytoskeleton |
14 | 58 | 0.064 | 72.4 | 27.6 | 0.0 | 37.4 | General transcription activities |
15 | 53 | 0.048 | 15.0 | 71.6 | 13.2 | 7.9 | MAPKKK cascade |
16 | 50 | 0.064 | 66.0 | 32.0 | 2.0 | 33.5 | rRNA processing |
17 | 45 | 0.055 | 24.4 | 73.3 | 2.2 | 11.1 | Metabolism of energy reserves |
18 | 44 | 0.058 | 59.0 | 36.3 | 4.5 | 5.1 | Metabolism |
19 | 39 | 0.072 | 10.2 | 89.7 | 0.0 | 7.3 | Cell-cell adhesion |
20 | 36 | 0.125 | 58.3 | 36.1 | 5.5 | 16.9 | Vesicular transport |
21 | 29 | 0.091 | 55.1 | 44.8 | 0.0 | 8.3 | Phosphate metabolism |
22 | 28 | 0.074 | 14.2 | 78.5 | 7.1 | 4.5 | Lysosomal and vacuolar protein degradation |
23 | 27 | 0.119 | 29.6 | 66.6 | 3.7 | 7.3 | Cytokinesis (cell division)/septum formation |
24 | 26 | 0.153 | 53.8 | 46.1 | 0.0 | 28.6 | Peroxisomal transport |
25 | 25 | 0.090 | 28.0 | 68.0 | 4.0 | 4.6 | Regulation of C-compound and carbohydrate utilization |
26 | 25 | 0.116 | 68.0 | 28 | 4.0 | 12.9 | Cell fate |
27 | 22 | 0.151 | 59.0 | 36.3 | 4.5 | 11.4 | DNA conformation modification |
28 | 21 | 0.147 | 76.1 | 19.0 | 4.7 | 23.9 | Mitochondrial transport |
29 | 20 | 0.200 | 75.0 | 20.0 | 5.0 | 24.0 | rRNA synthesis |
30 | 19 | 0.228 | 78.9 | 15.7 | 5.2 | 17.9 | Splicing |
31 | 17 | 0.220 | 70.5 | 29.4 | 0.0 | 19.7 | Microtubule cytoskeleton |
32 | 17 | 0.183 | 23.5 | 76.4 | 0.0 | 8.2 | Regulation of nitrogen utilization |
33 | 15 | 0.304 | 86.6 | 13.3 | 0.0 | 31.3 | Energy generation |
34 | 14 | 0.142 | 50.0 | 42.8 | 7.1 | 9.0 | Small GTPase mediated signal transduction |
35 | 13 | 0.564 | 76.9 | 23.0 | 0.0 | 15.9 | Mitosis |
36 | 13 | 0.358 | 84.6 | 15.4 | 0.0 | 12.4 | DNA conformation modification |
37 | 13 | 0.410 | 69.2 | 23.0 | 7.6 | 17.6 | 3'-end processing |
38 | 13 | 0.179 | 61.5 | 30.7 | 7.6 | 6.7 | DNA recombination and DNA repair |
39 | 12 | 0.196 | 16.6 | 75.0 | 8.3 | 3.9 | Unspecified signal transduction |
40 | 12 | 0.363 | 58.3 | 41.6 | 0.0 | 14.7 | Posttranslational modification of amino acids |
41 | 12 | 0.166 | 16.6 | 75.0 | 8.3 | 2.4 | Autoproteolytic processing |
42 | 11 | 0.218 | 54.5 | 45.4 | 0.0 | 2.9 | Transcriptional control |
43 | 11 | 0.200 | 72.7 | 27.2 | 0.0 | 8.2 | Enzymatic activity regulation/enzyme regulator |
44 | 10 | 0.466 | 80.0 | 20.0 | 0.0 | 14.8 | Translation initiation |
45 | 9 | 0.361 | 77.7 | 22.2 | 0.0 | 12.8 | Translation initiation |
46 | 8 | 0.321 | 50.0 | 37.5 | 12.5 | 5.6 | Metabolism of energy reserves |
47 | 8 | 0.321 | 75.0 | 25.0 | 0.0 | 9.0 | Modification by ubiquitination, deubiquitination |
48 | 8 | 0.321 | 37.5 | 62.5 | 0.0 | 3.7 | Mitosis |
49 | 7 | 0.333 | 42.8 | 57.1 | 0.0 | 3.5 | DNA damage response |
50 | 7 | 0.333 | 57.1 | 28.5 | 14.2 | 4.1 | Vacuolar transport |
51 | 7 | 0.285 | 28.5 | 71.4 | 0.0 | 4.4 | Biosynthesis of serine |
52 | 6 | 0.333 | 50.0 | 33.3 | 16.6 | 2.38 | Modification by phosphorylation, dephosphorylation, etc. |
53 | 5 | 0.400 | 100 | 0.0 | 0.0 | 7.0 | Meiosis |
54 | 5 | 0.600 | 100 | 0.0 | 0.0 | 7.0 | Vacuolar transport |
55 | 5 | 0.400 | 100 | 0.0 | 0.0 | 8.5 | ER to Golgi transport |
56 | 5 | 0.400 | 20.0 | 40.0 | 40.0 | 1.8 | cAMP mediated signal transduction |
57 | 5 | 0.500 | 40.0 | 40.0 | 20.0 | 3.1 | Oxidative stress response |
58 | 5 | 0.500 | 80.0 | 20.0 | 0.0 | 4.4 | Intracellular signalling |
59 | 5 | 0.600 | 40.0 | 60.0 | 0.0 | 4.2 | Tetracyclic and pentacyclic triterpenes |
60 | 5 | 0.400 | 60.0 | 40.0 | 0.0 | 4.1 | Mitochondrial transport |