Table 3. Differentially expressed miRNAs in the liver between Large White and Erhualian piglets detected with microarray compared to the deep sequencing and RT-qPCR validation.

	microarray			microRNA Sequencing				RT-qPCR
miRNAs	log2 Ratio(EHL/LW)	p-value	FDR(%)	RPM(LW)		RPM(EHL)	log2 Ratio(EHL/LW)	log2 Ratio(EHL/LW)	p-value
down-regulated miRNAs
miR-15b	−0.44	0.033	12.823	<10	<10			−0.79	0.022
miR-221	−0.80	0.069	12.823	2202	1781		−0.31	0.29	0.418
miR-27a	−0.83	0.048	12.823	331	389		0.23	−0.22	0.314
up-regulated miRNAs
miR-130b	0.72	0.079	6.839	175	220		0.33	0.87	0.002
miR-184	1.71	0.009	0	21	59		1.48	0.61	0.001
miR-185	0.78	0.035	6.839	<10	<10			0.79	0.027
miR-193a-5p	1.13	0.032	6.839	13	24		0.88	1.33	0.038
miR-378	1.07	0.09	6.839	903	1249		0.47	1.12	0.001
miR-500	0.79	0.091	12.823	907	1299		0.52	0.47	0.080
miR-532-5p	1.37	0.086	6.839	1600	2202		0.46	1.93	0.025

The miRNA expression in the liver of Erhualian piglets was compared with that of Large White. miRNAs with FDR <15% are shown. “<10" means the miRNA with RPM less than 10 is not shown in the table.