Summarizing performance for genome scale measurement of miRNA: reference samples and metrics

BMC Genomics

Table 3 Summary metrics derived from using one replicate of each sample per round

Measurement		Data Source			miRNA Detected				Log2 Signals			AUC^c		Deviation
Process	Technology	by Round			Non-	TrueNeg	TruePos		Lower	Upper	Range	All	Within	Log2 Ratio		Proportion
		Pure	Mixes	Reps	Selective	1-to-1^a	Brain	Placenta	Limit^b	Limit	Range	All	Range	Median	IQR	Sum
A	NGS	3	3	1	671	43	93	89	7.1	20.0	12.9	0.856	1.000	0.094	0.386	0.394
		4	4	1	696	51	98	91	8.0	20.2	12.2	0.921	0.996	0.081	0.492	0.399
		5	5	1	692	36	96	95	9.5	20.2	10.8	0.793	0.971	-0.102	0.545	0.323
B	NGS	3	3	1	618	35	109	37	8.9	20.1	11.2	0.832	0.969	-0.055	0.405	0.559
		4	4	1	527	35	97	33	8.0	19.0	11.0	0.910	0.972	-0.106	0.384	0.417
		5	5	1	455	28	73	32	7.8	19.2	11.4	0.849	1.000	-0.031	0.354	0.456
C	NGS	3	3	1	326	11	26	39	6.6	16.3	9.7	0.905	0.983	0.030	0.323	0.348
		4	4	1	158	12	15	4	8.4	11.8	3.5	0.704	1.000	0.001	0.617	0.382
		5	5	1	247	13	18	15	12.0	12.5	0.5	0.795	ND^d	-0.031	0.756	0.498
D	NGS	3	3	1	151	6	18	3	−	10.5	−	0.648	ND^d	-0.235	0.969	0.644
D	NGS	4	4	1	205	13	20	3	7.6	10.5	3.0	0.903	0.950	-0.126	0.569	0.471
E	Digital Hybridization	3	3	1	702	63	6	19	13.2	13.4	0.2	0.898	ND^d	-0.077	0.661	0.635
		4	4	1	618	27	12	24	14.6	15.4	0.8	0.727	ND^d	-0.340	0.670	0.376
		5	5	1	599	38	17	37	7.5	15.3	7.9	0.774	1.000	-0.165	0.749	0.511

^aLiver-selective miRNA or miRNA with approximately equal signals in both brain and placenta
^bLower limits for NGS and digital hybridization were calculated with at 95% of values falling within ± 0.585 log2 difference from mean
^cROC curves were prepared using ordered log2 ratios and a single replicate
^dNot determined (ND) due to insufficient number of true negative or true positive values

ISSN: 1471-2164