Mining differential top-k co-expression patterns from time course comparative gene expression datasets

BMC Bioinformatics

Table 1 Evaluation of disassembled relations in human datasets from the literature

Methods	Comparison		TP	TN	FP	FN	New	Sensitivity	Specificity	Accuracy
Undifferentiation	Comparison 1	Wild-type	0(0)	0(0)	0(0)	0(0)	43(0)	0.00%	N/A	0.00%
	Comparison 1	F72A/R73A	0(0)	0(0)	0(0)	0(0)	74(0)
	Comparison 2	Wild-type	0(0)	0(0)	0(0)	0(0)	43(0)
		R80A	0(0)	0(0)	0(0)	0(0)	32(0)
Constant degree	Comparison 1	Wild-type	0(0)	0(0)	0(0)	0(0)	9(3)	37.50%	N/A	37.50%
	Comparison 1	F72A/R73A	2(2)	0(0)	0(0)	0(0)	66(18)
	Comparison 2	Wild-type	1(1)	0(0)	0(0)	5(3)	70(42)
		R80A	0(0)	0(0)	0(0)	0(0)	65(25)
Various degrees	Comparison 1	Wild-type	5	0	0	3	53	63.04%	N/A	63.04%
	Comparison 1	F72A/R73A	13	0	0	5	70
	Comparison 2	Wild-type	3	0	0	5	66
		R80A	8	0	0	4	53

Abbreviation: TP True positive, consistent with positive gene regulation in the literature, TN True negative, consistent with negative gene regulation in the literature, FP False positive, inconsistent with negative gene regulation in the literature, FN False negative, inconsistent with positive gene regulation in the literature; Sensitivity: # of TP / (# of TP + # of FN); Specificity: # of TN / (# of TN + # of FP); Accuracy: (# of TP + # of TN) / (# of TP + # of TN + # of FP + # of FN).

ISSN: 1471-2105