Table 2:

Types of evidence sources used by each of 14 gene prioritization tools.

	Gene Interactions					Gene Similarities									Gene-Disease associations
	Physical PPI	Pathways	Genetic interactions	Regulation	Interologs	Co-expression	Co-localization	Functional annotations	Phenotype similarity	Shared domains	Sequence similarity	Phylogenetic profile similarity	Chemical interaction	Text Mining	Genetic associations	Differential expression	Animal models	Human phenotype similarity	Chemical information	Pathways	Text mining
DisGenNET															+		+	+	+		+
GLAD4U																					+
Genie																	+				+
OpenTargets															+	+	+		+	+	+
Polysearch2																					+
Phenolyzer	+	+		+				+			+				+
PhenoRank	+								+						+		+
Endeavour	+	+	+	+	+	+	+	+	+	+	+		+	+
GeneMANIA	+	+	+		+	+	+		+	+			+
GPS	+	+	+			+		+		+	+	+
MaxLink	+		+	+	+	+	+					+
pBRIT	+	+						+	+		+			+
ToppGene	+	+		+		+		+	+	+	+		+	+
ToppNet	+