. 2014 Jan 3;9(1):e84743. doi: 10.1371/journal.pone.0084743

Table 4. Percentages of false positive and false negative results for Luminex MagPlex-TAG pospiviroid array data when analyzed using three different methods for setting thresholds for positivity.

	Analysis of Luminex MagPlex-TAG pospiviroid array data^a
	ln(MFI)			MFI
	Method 1^c	Method 2^d	Method 3^e	Method 1^c	Method 2^d	Method 3^e
False positives ^b	0	88	0	0	81	63
False negatives ^b	0	0	88	0	0	0

^a The Luminex MagPlex-TAG pospiviroid array results for 14 sequence-characterized pospiviroid samples (in addition to negative no template control and healthy uninfected control samples) analyzed by three threshold setting methods, using both raw MFI and natural log (ln) transformed MFI data.

^b The percentage of false positive/negative for each method were calculated by scoring each sample with an array result, whereby an overall score for that sample was recorded as a false positive/negative if a false positive/negative result was called for at least one assay in the array.

^c Method 1 utilizes the novel, non-parametric data-driven threshold setting method described in this study.

^d Method 2 utilizes an arbitrary threshold cut-off set at the value of the mean MFI plus two-fold standard deviation of healthy (uninfected) control samples for all assays within the array.

^e Method 3 utilizes an arbitrary threshold cut-off set at the value of two times the mean MFI of healthy (uninfected) control samples for a given assay within the array.