Integrative analysis of breast cancer profiles in TCGA by TNBC subgrouping reveals novel microRNA-specific clusters, including miR-17-92a, distinguishing basal-like 1 and basal-like 2 TNBC subtypes

Table 3 Selected candidate mRNA-microRNA pairs

microRNA	mRNA	Correlation		Log2 Fold Change B1 vs B2		TNBC Pro-Survival Direction		Predicted Binding
microRNA	mRNA	PCC	adj. p-value	miRNA	mRNA	miRNA	mRNA	Orientation	mRNA
hsa-mir-17	IL1R1	−0.56	1.17e-12	1.04	−1.09	Down	UP	3p	IL1R1
hsa-mir-17	INPP4B	−0.55	4.21e-12	1.04	−1.31	Down	UP	3p	INPP4B
hsa-mir-18a	APH1B	−0.52	1.46e-10	0.98	−0.55	Down	UP	3p	(APH1A)
hsa-mir-18a	CPEB4	−0.50	6.02e-10	0.98	−0.83	Down	UP	3p	(CPEB1/3)
hsa-mir-18a	FAM214A	−0.52	1.00e-10	0.98	−0.54	Down	UP	3p	(FAM214B)
hsa-mir-18a	INPP4B	−0.52	1.62e-10	0.98	−1.31	Down	UP	3p	INPP4B
hsa-mir-18a	KCNMA1	−0.50	6.79e-10	0.98	−1.04	Down	UP	5p	KCNMA1
hsa-mir-18a	MAN2B2	−0.54	1.17e-11	0.98	−0.52	Down	UP	3p	(MAN2B1)
hsa-mir-18a	THSD4	−0.52	7.80e-11	0.98	−0.92	Down	UP	3p	THSD4
hsa-mir-19a	IL1R1	−0.52	9.24e-11	0.87	−1.09	Down	UP	3p + 5p	IL1R1

mRNA-microRNA pairs computed by the integrative analysis combining correlation, differential expression, survival and target analysis. PCC Pearson correlation coefficient. Target mRNAs in parenthesis are paralogs of the investigated mRNAs

ISSN: 1471-2407