BMC Genomics

Table 1 Component method performance

From: Collective judgment predicts disease-associated single nucleotide variants

Method	Q₂	PPV	TPR	NPV	TNR	MCC	AUC	%DB
PANTHER	0.74	0.79	0.73	0.69	0.74	0.48	0.82	74
PhD-SNP	0.76	0.78	0.74	0.75	0.78	0.53	0.84	100
SIFT	0.70	0.74	0.64	0.68	0.76	0.41	0.73	92
SNAP	0.64	0.59	0.90	0.79	0.38	0.33	0.79	100

Q₂=Overall accuracy, PPV and NPV=Positive and Negative Predicted Values, TPR and TNR=True Positive and Negative Rates. MCC=Mathew's correlation, AUC=area under the (ROC) curve, %DB is the fraction of the SV-2009 dataset for which a prediction is returned.

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ISSN: 1471-2164

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