Table 3.

Correlations between the gene scores computed by each method and features of the data used by each method

Data feature	PhenoRank-Simulation	PhenoRank-NoSimulation	DADA	EXOMISER	PRINCE
Network degree of each gene	−0.04	0.91	0.64	0.46	0.47
Number of sources of phenotype data	−0.03	0.21	0.32	0.18	0.26
Number of annotating phenotype terms	−0.04	0.13	NA	0.01	NA
Difference in the number of annotating phenotype terms	−0.01	−0.03	NA	−0.05	NA
Ontology depth of annotating phenotype terms	−0.03	0.18	NA	0.02	NA

Note: DADA and PRINCE do not quantify phenotypic similarity using terms from phenotype ontologies, and therefore correlations involving phenotype terms were not measured for these methods. Correlations measured using Spearman’s rank correlation coefficient.