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Table 6 Pathway and pathway pair classifiers

From: Iterative feature removal yields highly discriminative pathways

   Single Pathways Pathway Pairs Sparse SVM
Data Set IFR Iters Val.( μ/σ) Test Top5 Val.( μ/σ) Test Top5 Val.( μ/σ) Test Top5
Lung 30 95.5/7.0 99.3 96.9 98.8/3.7 98.0 98.8 99.8/1.7 98.0 96.8
Influenza 11-14 30 98.6/2.9 96.0 95.5 99.0/2.3 97.3 97.6 98.9/2.3 92.0 92.8
Prostate 30 78.9/14.2 79.4 77.6 81.8/14.0 79.4 78.2 91.0/5.7 79.4 80.6
BCell Lymph. 20 89.5/12.3 83.3 75.0 91.8/12.4 83.3 78.3 87.8/12.4 83.3 80.0
  1. Cross-validated classification results compared using features selected from discriminative pathways and pathway-pairs, and the “optimal” set of features selected by sparse SVM (SSVM). The latter is equivalent to the first iteration of IFR. The mean and standard deviation of 50 cross-validated trials are shown, followed by the accuracy of the best model from the validation trials applied to withheld test data. Also shown is the average accuracy of the top 5 models on the withheld test data.
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