Table 3.
Prediction Accuracy of PSLT on an Independent Human Data Set
| Independent test of PSLT on all proteins of LIFEdb data set (second-best test)
|
Independent test of PSLT on subset of LIFEdb proteins verified by literature (second-best test)
|
Concordance between LIFEdb GFP-based annotation and the literature
|
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|---|---|---|---|---|---|---|---|---|---|
| Sensitivitya | PPVb | Sensitivitya | PPVb | Sensitivitya | PPVb | ||||
| ER | 32 (57)% | 47 (60)% | 100 (100)% | 100 (100)% | 100% | 38% | |||
| Golgi | 25 (42)% | 50 (71)% | 0 (100)% | 0 (0)% | 75% | 75% | |||
| Cytosol | 44 (77)% | 63 (77)% | 82 (82)% | 82 (82)% | 64% | 74% | |||
| Nucleus | 85 (88)% | 66 (89)% | 100 (100)% | 89 (94)% | 84% | 76% | |||
| Peroxisome | — | 0 (0)% | 100 (100)% | 67 (67)% | 67% | 100% | |||
| Plasma memb | 54 (57)% | 39 (53)% | 73 (82)% | 100 (100)% | 20% | 75% | |||
| Lysosome | — | 0 (0)% | 100 (100)% | 100 (100)% | 0% | 0% | |||
| Mitochondria | 25 (33)% | 43 (57)% | 100 (100)% | 100 (100)% | 50% | 40% | |||
| Extracellular | — | — | 100 (100)% | 33 (50)% | 0% | 0% | |||
| Overall accuracy | 55 (72)% | 87 (88)% | 59% | ||||||
| Coverage | 50 (50)% | 67 (67)% | — | ||||||
a
Sensitivity calculated as TP/(TP + FN).
b
PPV indicates positive predictive value (calculated as TP/[TP + FP]).