Validation of clusters: PAM analysis generating classifiers for clusters validated in independent dataset GSE2658
| . | CD1 cluster . | CD2 cluster . | MF cluster . | MS cluster . | PR cluster . | HY cluster . | Myeloid cluster . |
|---|---|---|---|---|---|---|---|
| Samples in training set* | 13 | 34 | 32 | 33 | 15 | 77 | 39 |
| Samples in validation set (GSE2568)† | 28 | 60 | 37 | 68 | 47 | 116 | 145 |
| No. of probes in classifier | 106 | 45 | 35 | 8 | 86 | 56 | 87 |
| PPV, % | 57.60 | 80.60 | 97.10 | 94.30 | 61.70 | 76.70 | 58.50 |
| NPV, % | 97.60 | 98.30 | 98.90 | 99.40 | 95.10 | 94.60 | 81.70 |
| Sn, % | 67.90 | 90.00 | 89.20 | 97.10 | 61.70 | 84.80 | 42.80 |
| Sp, % | 96.40 | 96.30 | 99.70 | 98.80 | 95.10 | 91.30 | 89.40 |
| . | CD1 cluster . | CD2 cluster . | MF cluster . | MS cluster . | PR cluster . | HY cluster . | Myeloid cluster . |
|---|---|---|---|---|---|---|---|
| Samples in training set* | 13 | 34 | 32 | 33 | 15 | 77 | 39 |
| Samples in validation set (GSE2568)† | 28 | 60 | 37 | 68 | 47 | 116 | 145 |
| No. of probes in classifier | 106 | 45 | 35 | 8 | 86 | 56 | 87 |
| PPV, % | 57.60 | 80.60 | 97.10 | 94.30 | 61.70 | 76.70 | 58.50 |
| NPV, % | 97.60 | 98.30 | 98.90 | 99.40 | 95.10 | 94.60 | 81.70 |
| Sn, % | 67.90 | 90.00 | 89.20 | 97.10 | 61.70 | 84.80 | 42.80 |
| Sp, % | 96.40 | 96.30 | 99.70 | 98.80 | 95.10 | 91.30 | 89.40 |
Per cluster, the number of samples and total number of samples in the training set and test set are shown, the number of probe sets in the classifier, and the PPV, NPV, Sn, and Sp.
NPV indicates negative predictive value; PAM, prediction analysis of microarrays; PPV, positive predictive value; PR, proliferation-associated genes; Sn, sensitivity; and Sp, specificity.
The total of all samples in the training set was 320.
The total of all samples in the validation set was 414 except in the Myeloid cluster, where the total was 559.