Table 1.
The results of DCS, DSCP and DSCP using protein complexes predicted by DPClus on DIP PPI
|
Methods |
Size |
MF |
CC |
BP |
||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| #GO | PPV | TPR | F-measure | MCC | #GO | PPV | TPR | F-measure | MCC | #GO | PPV | TPR | F-measure | MCC | ||
| DCS |
[10–30] |
75 |
0.44 |
0.37 |
0.40 |
0.40 |
89 |
0.40 |
0.39 |
0.39 |
0.38 |
216 |
0.34 |
0.35 |
0.34 |
0.35 |
| (30–50] |
10 |
0.41 |
0.36 |
0.39 |
0.38 |
18 |
0.30 |
0.25 |
0.27 |
0.26 |
36 |
0.31 |
0.30 |
0.30 |
0.30 |
|
| (50–100] |
8 |
0.50 |
0.42 |
0.46 |
0.45 |
12 |
0.33 |
0.30 |
0.32 |
0.30 |
13 |
0.34 |
0.33 |
0.33 |
0.33 |
|
| (100–200] |
2 |
0.71 |
0.62 |
0.66 |
0.65 |
5 |
0.27 |
0.24 |
0.25 |
0.22 |
2 |
0.47 |
0.46 |
0.47 |
0.46 |
|
| In total |
95 |
0.45 |
0.38 |
0.41 |
0.41 |
124 |
0.37 |
0.35 |
0.36 |
0.35 |
267 |
0.34 |
0.34 |
0.34 |
0.34 |
|
| DSCP |
[10–30] |
75 |
0.44 |
0.36 |
0.40 |
0.39 |
89 |
0.49 |
0.48 |
0.48 |
0.48 |
216 |
0.38 |
0.38 |
0.38 |
0.37 |
| (30–50] |
10 |
0.37 |
0.31 |
0.34 |
0.33 |
18 |
0.36 |
0.33 |
0.34 |
0.33 |
36 |
0.37 |
0.35 |
0.36 |
0.35 |
|
| (50–100] |
8 |
0.50 |
0.38 |
0.43 |
0.42 |
12 |
0.35 |
0.31 |
0.32 |
0.31 |
13 |
0.40 |
0.40 |
0.40 |
0.39 |
|
| (100–200] |
2 |
0.73 |
0.55 |
0.63 |
0.62 |
5 |
0.30 |
0.26 |
0.28 |
0.25 |
2 |
0.55 |
0.53 |
0.54 |
0.53 |
|
| In total |
95 |
0.44 |
0.36 |
0.40 |
0.39 |
124 |
0.45 |
0.43 |
0.44 |
0.43 |
267 |
0.38 |
0.37 |
0.38 |
0.37 |
|
| DSCP_DPClus |
[10–30] |
75 |
0.44 |
0.36 |
0.40 |
0.39 |
89 |
0.41 |
0.34 |
0.37 |
0.36 |
216 |
0.34 |
0.32 |
0.33 |
0.33 |
| (30–50] |
10 |
0.37 |
0.31 |
0.34 |
0.33 |
18 |
0.30 |
0.25 |
0.27 |
0.26 |
36 |
0.30 |
0.26 |
0.28 |
0.27 |
|
| (50–100] |
8 |
0.50 |
0.38 |
0.43 |
0.42 |
12 |
0.32 |
0.30 |
0.31 |
0.29 |
13 |
0.35 |
0.30 |
0.33 |
0.31 |
|
| (100–200] |
2 |
0.73 |
0.55 |
0.63 |
0.62 |
5 |
0.26 |
0.25 |
0.26 |
0.23 |
2 |
0.49 |
0.48 |
0.48 |
0.47 |
|
| In total | 95 | 0.44 | 0.36 | 0.40 | 0.39 | 124 | 0.38 | 0.32 | 0.34 | 0.34 | 267 | 0.34 | 0.32 | 0.33 | 0.32 | |
The GO terms in MF, CC and BP are divided into 4 groups according to the number of proteins annotated by them, respectively. Those GO terms which are consisted of more than 10 or less than 200 proteins are filtered out because they are either too rare or too general for prediction. This table shows prediction results of DCS, DSCP and DSCP using protein complexes predicted by DPClus (DSCP_DPClus) based on DIP PPI data, including the number of GO terms in each group and each category, and the corresponding values of PPV, TPR and MCC. Here, column "size" means the number of protein in each GO term. "#GO" denotes the number of GO terms.