Extending signalling pathways with protein-interaction networks. Application to apoptosis.
Extending signalling pathways with protein-interaction networks. Application to apoptosis.
Joan Planas-Iglesias, Emre Guney, Javier Garcia-Garcia, Kevin A. Robertson, Sobia Raza, Tom C. Freeman, Peter Ghazal and Baldo Oliva.
OMICS. 2012 May;16(5):245-56. Epub 2012 Mar 2. (PMID: 22385281)
Joan Planas-Iglesias, Emre Guney, Javier Garcia-Garcia, Kevin A. Robertson, Sobia Raza, Tom C. Freeman, Peter Ghazal and Baldo Oliva.
OMICS. 2012 May;16(5):245-56. Epub 2012 Mar 2. (PMID: 22385281)
Supplementary materials for "Extending signalling pathways with protein-interaction networks. Application to apoptosis."
Supplementary table 6
Table S6. Best combinations of scoring methods per network and validation set. In rows are shown the results for each network and the number of nodes is indicated in parentheses. Main columns show the results depending on the validation set (KW and PM for KeyWord and ProMiner validation, respectivelly). Inner columns indicate the best combination of methods (BC), the total number of canidates (#C), the number of candidates being validated (#VC), the number of validated proteins in the network (#VN), and the p-Value.
| Network | KW | PM | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| BC | #C | #VC | #VN | p-Value | BC | #C | #VC | #VN | p-Value | |
| Experimental (1014) | ALD, iALD | 116 | 46 | 120 | 3.48 e-31 | ALD, iALD | 116 | 19 | 52 | 7.75 e-13 |
| STRING+ (2868) | ALD, FF, iALD | 229 | 74 | 215 | 1.14 e-58 | ALD, FF, iALD | 229 | 33 | 87 | 8.87 e-26 |
| Experimental expansion (25207) | FF, iALD | 294 | 81 | 523 | 4.45 e-129 | FF, iALD | 294 | 30 | 273 | 1.25 e-47 |
| STRING+ expansion (33125) | FF, iALD | 293 | 88 | 584 | 3.81 e-151 | FF, SC | 271 | 36 | 297 | 1.42 e-62 |