Scientific Reports

Table 1 Phenotype performance

From: Computable phenotypes to identify respiratory viral infections in the All of Us research program

		Counts (N)				Phenotype Performance
	Phenotype	TP	FP	FN	TN	Sen.	Spec.	PPV	NPV	φ
Influenza virus	1 + ICDs or medication	1496	778	472	32,018	0.760	0.976	0.658	0.985	0.688
	1 + ICDs	1315	572	653	32,224	0.668	0.983	0.697	0.980	0.664
	2 + ICDs or medication	1120	444	848	32,352	0.569	0.986	0.716	0.974	0.619
	2 + ICDs or (1 ICD + medication)	939	238	1029	32,558	0.477	0.993	0.798	0.969	0.600
	3 + ICDs or medication	941	339	1027	32,457	0.478	0.990	0.735	0.969	0.574
	3 + ICDs or (1–2 ICDs + medication)	760	133	1208	32,663	0.386	0.996	0.851	0.964	0.558
	2 + ICDs	691	194	1277	32,602	0.351	0.994	0.781	0.962	0.506
	3 + ICDs	360	68	1608	32,728	0.183	0.998	0.841	0.953	0.379
SARS-CoV-2	1 + ICDs or medication	7298	3302	8894	177,219	0.451	0.982	0.688	0.952	0.526
	1 + ICDs	7258	3298	8934	177,223	0.448	0.982	0.688	0.952	0.524
	2 + ICDs or medication	4483	1324	11,709	179,197	0.277	0.993	0.772	0.939	0.438
	2 + ICDs or (1 ICD + medication)	4443	1320	11,749	179,201	0.274	0.993	0.771	0.938	0.435
	3 + ICDs or medication	2598	546	13,594	179,975	0.160	0.997	0.826	0.930	0.345
	3 + ICDs or (1–2 ICDs + medication)	2558	542	13,634	179,979	0.158	0.997	0.825	0.930	0.342
	2 + ICDs	4309	1310	11,883	179,211	0.266	0.993	0.767	0.938	0.427
	3 + ICDs	2260	523	13,932	179,998	0.140	0.997	0.812	0.928	0.318

TP: true positive; FP: false positive; FN: false negative; TN: true negative; Sen: sensitivity; Spec: specificity; PPV: positive predictive value; NPV: negative predictive value; φ: phi coefficient (mean square contingency coefficient).

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