Joint estimation of causal effects from observational and intervention gene expression data

BMC Systems Biology

Table 3 Comparison of methods on complete DREAM4 data

Criterion	Dataset	Petri	MCMC-	Pinna	IDA	IDA
		Nets	Mallows		(opt)	(pes)
	1	0.972	0.447	0.833	0.448	0.413
	2	0.841	0.647	0.584	0.610	0.641
AUROC	3	0.900	0.717	0.816	0.638	0.638
	4	0.954	0.867	0.899	0.554	0.483
	5	0.928	0.814	0.700	0.599	0.534
	1	0.916	0.183	0.506	0.142	0.133
	2	0.547	0.289	0.331	0.243	0.284
AUPRC	3	0.968	0.340	0.416	0.242	0.242
	4	0.852	0.633	0.664	0.162	0.158
	5	0.761	0.308	0.278	0.146	0.156
DREAM score	overall	7.127	2.579	3.563	0.735	0.723

Area under the ROC curve (AUROC), area under the precision-recall curve (AUPRC), and DREAM score for each of the five DREAM4 datasets for the Petri Nets [17], MCMC-Mallows, Pinna et al., and IDA (optimistic and pessimistic) methods. Results for the Petri Nets method [17] and evaluation scripts for the overall DREAM score were obtained from the DREAM4 evaluation page, located at http://wiki.c2b2.columbia.edu/dream/results/DREAM4.

ISSN: 1752-0509