New methods for separating causes from effects in genomics data

BMC Genomics

Table 8 Ranks of causal orientation methods for each gold standard

Method	ECOLI	YEAST	NOTCH1	RELA
ANM	-	-	-	-
PNL	-	-	5	5
IGCI (Uniform/Entropy)	2	-	3	3
IGCI (Uniform/Integral)	3	-	4	4
IGCI (Gaussian/Entropy)	1	2	1	1
IGCI (Gaussian/Integral)	2	1	2	2
GPI-MML	-	-	-	-
ANM-MML	-	-	-	-
GPI	4	-	4	5
ANM-GAUSS	-	-	2	-
LINGAM	-	-	-	-

Ranks were computed only for the methods with AUCs greater than 0.50. The lower the rank, the better the AUC of the causal orientation method for the given gold standard. The computation of rank took into account statistical variability, e.g. the AUCs of 0.724 and 0.713 obtained by the two IGCI methods in the ECOLI gold standard are statistically indistinguishable; that is why they have the same rank value.

ISSN: 1471-2164