## Table 4 |
||||||

Comparison of iBMA-prior, iBMA-shortlist and Lirnet in network construction on the
Brem data |
||||||

Method |
Network size |
p-value of chi square test^{a} |
TPR (%)^{b} |
# misclass.^{c} |
TP |
O/E^{d} |

iBMA-prior | 8000 | 7.75E-65 | 15.62 | 10198 | 323 | 2.41 |

iBMA-shortlist | 35995 | 1.02E-59 | 10.99 | 14581 | 818 | 1.70 |

Lirnet | 10491 | 1.90E-03 | 8.42 | 10080 | 132 | 1.30 |

^{a} The *p*-value of Pearsonâ€™s chi-square test measures the strength of association between an
inferred network and the Yeastract database.

^{b} True positive rate (TPR) is defined as the proportion of inferred regulatory relationships
that are documented in Yeastract.

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

^{d} The O/E ratio is the number of folds the observed number of recovered relationships
(i.e., TP) in excess of the expected count of recovery by chance.

Lo * et al.*

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