Revealing editing and SNPs of microRNAs in colon tissues by analyzing high-throughput sequencing profiles of small RNAs

Table 1 The identified editing sites in miRNAs in the sequenced stage III CRC samples.

					N_no_TAI			T_no_TAI			N_with_TAI			T_with_TAI
ME ID	P.P.	S.P.	W	ME	MER	MEP	FDR_P	MER	MEP	FDR_P	MER	MEP	FDR_P	MER	MEP	FDR_P	Ref.
hsa-mir-376a-1_49_A _g	49	6	A	g	23	89.4	0.00E+00	19	88.7	0.00E+00	28	91.7	0.00E+00	55	92.3	0.00E+00	[3, 4]
hsa-mir-376a-2_55_A_g	55	6	A	g	23	89.4	0.00E+00	19	88.7	0.00E+00	28	91.7	0.00E+00	55	92.3	0.00E+00	[4]
hsa-mir-376c_48_A_g	48	6	A	g	35	35.2	0.00E+00	26	31	0.00E+00	35	38.4	0.00E+00	70	34.5	0.00E+00	[4]
hsa-let-7a-2_28_A_g	28		A	g	33	17.1	1.90E-13	41	23.6	0.00E+00	63	29	0.00E+00	34	25.5	0.00E+00
hsa-mir-378b_53_A_g	53		A	g	24	92.4	0.00E+00	6	100	0.00E+00	26	95.5	0.00E+00	15	92.3	0.00E+00
hsa-mir-497_83_A_g	83		A	g	15	83.3	0.00E+00	3	72.7	3.71E-10	19	85.7	0.00E+00	6	83.3	0.00E+00
hsa-mir-6503_59_A_g	59	7	A	g	15	72.7	0.00E+00	6	46.9	3.11E-11	9	62.5	0.00E+00	6	45.5	2.03E-11
hsa-mir-411_20_A_g	20	5	A	g	36	4.5	1.00E+00	51	4.8	1.00E+00	43	9.7	4.84E-05	38	5	1.00E+00	[4]
hsa-mir-125b-1_25_C_u	25		C	u	226	5.1	1.00E+00	197	6.9	4.28E-05	392	8.9	0.00E+00	191	6.7	3.00E-04
hsa-mir-125b-2_27_C_u	27		C	u	225	5	1.00E+00	195	6.8	7.50E-05	392	8.8	0.00E+00	192	6.6	4.69E-04
hsa-mir-141_72_U_g	72		U	g	747	5.6	8.11E-03	1034	4.4	1.00E+00	482	4.7	1.00E+00	2067	4.1	1.00E+00
hsa-mir-378c_30_-_g	30		-	g	57	21.8	0.00E+00	21	22.7	5.90E-14	55	27.8	0.00E+00	17	32.5	0.00E+00
hsa-mir-429_64_U_g	64		U	g	239	6.5	2.05E-04	261	5.4	1.00E+00	149	6.6	2.83E-03	155	5.5	7.63E-01
hsa-mir-375_56_G_c	56		G	c	249	1.9	1.00E+00	163	1.2	1.00E+00	610	5.6	2.18E-02	17	1.6	1.00E+00

P.P. and S.P. means the position in pre-miRNA and seed region, respectively. W and ME means the original nucleotide, as in the miRBase, and edited/mutated nucleotide, respectively. N_no_TAI, T_no_TAI, N_with_TAI (adjacent normal tissue) and T_with_TAI means the sequencing profiles of adjacent normal tissue without TAI, cancer tissue without TAI, adjacent normal tissue with TAI and cancerous tissue with TAI, respectively. MER, MEP, and FDR_P means the number of edited reads, the percentage of edited reads, and the FDR-corrected P-value using method of [39], respectively.

ISSN: 1471-2164