microRNAs’ differential regulations mediate the progress of Human Papillomavirus (HPV)-induced Cervical Intraepithelial Neoplasia (CIN)

Table 3 Comparison of SIG++ method and permutation method from the number of identified miRNA — mRNA pairs

Data	Cases of differential regulation	Number of miRNA— mRNA Pairs	Methods
Data	Cases of differential regulation	Number of miRNA— mRNA Pairs	SIG++	Permutation
Normal vs. CIN I	Regulations exist in normal & not exist in CIN I	N _total	401	181
		N _AP	37	12
		N _TP	81	39
		N _EP = N _AP + N _TP	118(Set 1)	51
	Regulations not exist in normal & exist in CIN I	N _total	129	266
		N _AP	20	38
		N _TP	9	15
		N _EP = N _AP + N _TP	29 (Set 2)	53
CIN I vs. CIN III	Regulations exist in CIN I & not exist in CIN III	N _total	371	93
		N _AP	109	37
		N _TP	52	10
		N _EP = N _AP + N _TP	161 (Set 3)	47
	Regulations not exist in CIN I & exist in CIN III	N_total	107	65
		N_AP	6	3
		N_TP	9	6
		N_EP = N_AP + N_TP	15 (Set 4)	9

This table lists the number of miRNA — mRNA pairs with significant regulation change detected by the SIG++ method and by the Permutation method, respectively. N_total: the number of detected differentially regulated miRNA — mRNA pairs whose targets have obvious expression change; N_AP: the number of Agreement Pair (AP); N_TP: the number of Typical Pair (TP); N_EP: the number of Efficient Pair (EP). For the Efficient Pairs detected by the SIG++ algorithm, ‘Set 1’ refers to the set of EP whose regulation exist in normal stage and not exist in CIN I stage, ‘Set 2’ refers to the set of EP with regulation nonexistent in normal and existent in CIN I, ‘Set 3’ refers to the set of EP with regulation existent in CIN I and nonexistent in CIN III, and ‘Set 4’ refers to the set of EP with regulation nonexistent in CIN I and existent in CIN III.

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