Table 5

Assessment result for the different methods applied to data sets generated in the stimulation study
Method Data used Network size p-value of chi sq testa TPR (%)b # mis-class.c TP
iBMA-prior Generated data + prior probability matrix 14011 <1.00E-320 71.13 16029 9966
iBMA-shortlist Generated data + prior probability matrix 30753 <1.00E-320 47.23 23652 14526
iBMA-size Generated data only 9349 <1.00E-320 20.31 27503 1899
iBMA-noprior Generated data only 29393 <1.00E-320 8.55 46317 2513

a The p-value of Pearson’s chi-square test measures the strength of association between an inferred network and the true network for the simulation study.

b True positive rate (TPR) is defined as the proportion of correctly inferred regulatory relationships.

c The number of misclassified cases is the sum of false positives and false negatives.

Remark: The values reported in the table were averaged across the 20 replications. The true network for the simulation study contained a total of 21951 edges.

Lo et al.

Lo et al. BMC Systems Biology 2012 6:101   doi:10.1186/1752-0509-6-101

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