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Table 3 Results on average specificity, sensitivity, accuracy, and MCC for both 5p and 3p arms by five-fold cross-validation using PHDCleav and LBSizeCleav (k=1,,5) with window sizes 8,10,12,14 based on secondary structures predicted by RNAFold

From: LBSizeCleav: improved support vector machine (SVM)-based prediction of Dicer cleavage sites using loop/bulge length

Method Window size 5p arm 3p arm
   Sn Sp Ac MCC Sn Sp Ac MCC
Extended PHDCleav 8 0.746 0.744 0.745 0.490 0.772 0.750 0.761 0.522
  10 0.792 0.783 0.787 0.575 0.779 0.800 0.790 0.580
  12 0.798 0.799 0.798 0.597 0.785 0.830 0.808 0.616
  14 0.778 0.813 0.795 0.591 0.805 0.853 0.829 0.659
LBSizeCleav (k=1) 8 0.739 0.805 0.772 0.545 0.785 0.790 0.788 0.576
  10 0.798 0.820 0.809 0.618 0.795 0.815 0.805 0.610
  12 0.792 0.815 0.803 0.607 0.822 0.840 0.831 0.662
  14 0.815 0.822 0.819 0.638 0.851 0.852 0.851 0.703
LBSizeCleav (k=2) 8 0.753 0.788 0.771 0.542 0.792 0.788 0.790 0.580
  10 0.816 0.795 0.806 0.612 0.811 0.794 0.803 0.606
  12 0.836 0.784 0.810 0.621 0.814 0.803 0.808 0.617
  14 0.845 0.769 0.807 0.616 0.867 0.800 0.834 0.669
LBSizeCleav (k=3) 8 0.751 0.794 0.773 0.546 0.784 0.797 0.790 0.581
  10 0.808 0.808 0.808 0.615 0.795 0.813 0.804 0.608
  12 0.822 0.800 0.811 0.623 0.808 0.835 0.821 0.643
  14 0.816 0.803 0.809 0.619 0.853 0.838 0.846 0.692
LBSizeCleav (k=4) 8 0.764 0.772 0.768 0.536 0.809 0.772 0.790 0.581
  10 0.824 0.762 0.793 0.587 0.824 0.766 0.795 0.590
  12 0.841 0.737 0.789 0.581 0.842 0.756 0.799 0.600
  14 0.871 0.678 0.774 0.559 0.898 0.697 0.797 0.607
LBSizeCleav (k=5) 8 0.782 0.747 0.764 0.529 0.822 0.744 0.783 0.568
  10 0.836 0.732 0.784 0.572 0.829 0.726 0.777 0.558
  12 0.867 0.699 0.783 0.574 0.864 0.682 0.773 0.556
  14 0.899 0.626 0.763 0.546 0.917 0.619 0.768 0.562
  1. Sn, Sp, Ac, and MCC denote sensitivity, specificity, accuracy, and Matthews correlation coefficient, respectively
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