Table 2.
Predicted functions with prediction hit-rates higher than 50% according to the flexible scheme for yeast proteins that are unannotated in MIPS and that have degrees higher than four in any of the six yeast PPI networks. The columns have the same meaning as in Table 1
| Protein of interest | Degree | PPI Network | Number of proteins in cluster | Number of unclassified proteins in cluster | Majority (and predicted) function | Number of proteins in cluster with the majority function | Hit-rate | Miss-rate |
|---|---|---|---|---|---|---|---|---|
| PWP1 (YLR196W) | 22 | vonMering | 23 | 1 | Transcription | 17 | 77.27% | 0.00% |
| STO1 (YMR125W2) | 42 | vonMering | 6 | 1 | Protein with binding function or cofactor requirement (structural or catalytic) | 5 | 100.00% | 0.00% |
| Protein fate (folding, modification, destination) | 4 | |||||||
| Transcription | 3 | |||||||
| OLA1 (YBR025C) | 10 | vonMering | 3 | 1 | Cell rescue, defense and virulence | 2 | 100.00% | 0.00% |
| YMR074C | 6 | vonMering | 3 | 1 | Protein synthesis | 2 | 100.00% | 0.00% |
| YMR310C | 51 | vonMering | 7 | 1 | Protein synthesis | 5 | 83.33% | 0.00% |
| YNL122C | 6 | vonMering | 3 | 1 | Protein synthesis | 2 | 100.00% | 0.00% |
| YOR093C | 15 | vonMering | 3 | 1 | Metabolism | 2 | 100.00% | 0.00% |
| COS6 (YGR295C) | 6 | DIP-core | 9 | 1 | Cellular transport, transport facilities and transport routes | 6 | 75.00% | 12.50% |
| Protein fate (folding, modification, destination) | 5 | |||||||
| YAL027W | 19 | Krogan | 9 | 3 | Transcription | 4 | 66.67% | 0.00% |
| Protein with binding function or cofactor requirement (structural or catalytic) | 4 | |||||||
| GDT1 (YBR187W) | 6 | Krogan | 3 | 1 | Transcription | 2 | 100.00% | 0.00% |
| YLR455W | 19 | Krogan | 7 | 2 | Transcription | 4 | 80.00% | 0.00% |
| Protein with binding function or cofactor requirement (structural or catalytic) | 3 | |||||||
| PBY1 (YBR094W) | 23 | MIPS | 6 | 1 | Cell cycle and DNA processing | 3 | 60.00% | 0.00% |
| Cellular transport, transport facilities and transport routes | 3 | |||||||
| Biogenesis of cellular components | 3 | |||||||
| SHU2 (YDR078C) | 5 | MIPS | 4 | 1 | Protein fate (folding, modification, destination) | 2 | 66.67% | 0.00% |
| Protein with binding function or cofactor requirement (structural or catalytic) | 2 | |||||||
| YER084W | 5 | MIPS | 7 | 2 | Cellular transport, transport facilities and transport routes | 4 | 80.00% | 20.00% |
| Protein fate (folding, modification, destination) | 3 | |||||||
| YPT35 (YHR105W) | 5 | MIPS | 7 | 2 | Protein fate (folding, modification, destination) | 3 | 60.00% | 0.00% |
| Cellular transport, transport facilities and transport routes | 3 | |||||||
| EAF6 (YJR082C) | 16 | MIPS | 13 | 2 | Transcription | 6 | 54.55% | 9.09% |
| ILM1 (YJR118C) | 11 | MIPS | 8 | 2 | Cell cycle and DNA processing | 4 | 66.67% | 0.00% |
| YKL061W | 7 | MIPS | 4 | 1 | Metabolism | 2 | 66.67% | 33.33% |
| RAD33 (YML011C) | 5 | MIPS | 9 | 2 | Protein fate (folding, modification, destination) | 4 | 57.14% | 14.29% |
| Cellular transport, transport facilities and transport routes | 4 | |||||||
| IES2 (YNL215W) | 7 | MIPS | 5 | 1 | Cell cycle and DNA processing | 3 | 75.00% | 0.00% |
| SGT2 (YOR007C) | 5 | MIPS | 10 | 1 | Transcription | 5 | 55.56% | 0.00% |
| YPR084W | 6 | MIPS | 4 | 2 | Cellular transport, transport facilities and transport routes | 2 | 100.00% | 0.00% |
| YAL018C | 9 | DIP | 3 | 1 | Protein fate (folding, modification, destination) | 2 | 100.00% | 0.00% |
| Cellular transport, transport facilities and transport routes | 2 | |||||||
| UIP3 (YAR027W) | 38 | DIP | 5 | 2 | Interaction with the environment | 2 | 66.67% | 33.33% |
| YAR028W | 11 | DIP | 3 | 1 | Cellular transport, transport facilities and transport routes | 2 | 100.00% | 0.00% |
| OLA1 (YBR025C) | 8 | DIP | 9 | 2 | Protein with binding function or cofactor requirement (structural or catalytic) | 6 | 85.71% | 0.00% |
| YDL089W | 8 | DIP | 4 | 2 | Protein fate (folding, modification, destination) | 2 | 100.00% | 0.00% |
| YEL068C | 5 | DIP | 6 | 3 | Cell cycle and DNA processing | 2 | 66.67% | 0.00% |
| COS4 (YFL062W) | 22 | DIP | 5 | 1 | Cellular transport, transport facilities and transport routes | 3 | 75.00% | 25.00% |
| Biogenesis of cellular components | 3 | |||||||
| YHR140W | 61 | DIP | 16 | 2 | Metabolism | 10 | 71.43% | 7.14% |
| YET1 (YKL065C) | 51 | DIP | 34 | 4 | Cellular transport, transport facilities and transport routes | 16 | 53.33% | 0.00% |
| YLL023C | 22 | DIP | 17 | 2 | Cellular transport, transport facilities and transport routes | 10 | 66.67% | 0.00% |
| RAD33 (YML011C) | 5 | DIP | 9 | 3 | Metabolism | 4 | 66.67% | 0.00% |
| YNL092W | 29 | DIP | 3 | 1 | Metabolism | 2 | 100.00% | 0.00% |
| PRM1 (YNL279W) | 6 | DIP | 4 | 1 | Metabolism | 2 | 66.67% | 33.33% |
| Biogenesis of cellular components | 2 | |||||||
| YOR164C | 6 | DIP | 6 | 2 | Biogenesis of cellular components | 3 | 75.00% | 25.00% |
| YOR220W | 6 | DIP | 5 | 2 | Protein with binding function or cofactor requirement (structural or catalytic) | 3 | 100.00% | 0.00% |
| Cellular transport, transport facilities and transport routes | 2 | |||||||
| Interaction with the environment | 2 | |||||||
| Biogenesis of cellular components | 2 |