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Table 1 Number of experimentally confirmed miRNA-mRNA associations by the ground-truth data

From: DMirNet: Inferring direct microRNA-mRNA association networks

  Single Method Ensemble Method
Corpcor Space MIND C&S C&M S&M C&S&M
EMT Whole 35 45 24 45 34 35 41
Bootstrap 32 38 25 40 24 37 40
MCC Whole 200 183 210 204 206 201 209
Bootstrap 211 204 207 201 217 220 216
BR Whole 98 83 95 90 94 97 102
Bootstrap 107 95 99 99 102 100 105
  1. The Top 100 correlations for each miRNA were selected from each experiment for performance comparison. To evaluate the effect of three direct correlation inference methods, bootstrapping and Ensemble approach, we performed a comparative study using EMT, MCC and BR datasets. Corpcor (denoted as C) is the partial correlation estimation method, SPACE (denoted as S) is the sparse partial correlation estimation method, and MIND (denoted as M) is the mutual information-based network deconvolution method. ‘Whole’ means that the whole expression profiles were used to infer a direct correlation matrix, and ‘Bootstrap’ means that 100 direct correlation matrices were computed using 100 bootstrapped samples and then aggregated based on an inverse-rank-product method