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Table 2 Comparison of algorithms tested on Swiss-Prot dataset*

From: EFIN: predicting the functional impact of nonsynonymous single nucleotide polymorphisms in human genome

  AUC Accuracy Precision Sensitivity Specificity
EFIN (Swiss-Prot)** 90.7%(1.0%) 83.7%(0.98%) 86.7%(3.3%) 86.4%(0.9%) 79.5%(3.0%)
GERP++ 76.10% 52.80% 45.27% 96.78% 24.36%
PhyloP 76.30% 54.47% 46.18% 96.47% 27.33%
MutationTaster 85.40% 79.47% 69.07% 86.42% 74.98%
SIFT 83.60% 76.58% 67.29% 78.52% 75.32%
  1. *This test is based on a subset of Swiss-Prot, of which mutations can be processed by all these 5 tools, including totally 18660 damaging variants and 28863 neutral variants.
  2. **Swiss-Prot trained EFIN is validated by 10 fold cross-validation, and all these statistical measures are average values. Standard deviation is described within brackets after each measure.