Integrative genomics analysis of genes with biallelic loss and its relation to the expression of mRNA and micro-RNA in esophageal squamous cell carcinoma

Table 2 Description of DNA alterations in SNPs found in genes with frequent biallelic loss among ESCC cases¹

Row no.	Case no.	No. SNPs with biallelic loss	No. SNPs with LOH	No. SNPs with CN loss	No. SNPs with CN gain	No. SNPs with CN neutral LOH
1	E24	1304	479	5173	0	9
2	E4	1251	193	3686	0	166
3	E30	1082	799	4449	0	15
4	E27	895	436	3858	0	114
5	E14	796	338	3845	0	266
6	E26	769	928	4115	0	310
7	E6	762	114	2244	107	173
8	E23	720	583	3870	0	21
9	E29	707	185	3384	191	164
10	E22	657	661	2722	133	217
11	E17	435	272	2735	428	340
12	E10	283	60	1474	746	41
13	E13	213	71	1411	824	202
14	E8	170	44	1341	118	0
15	E18	91	8	1089	282	137
16	E1	90	69	383	0	956
17	E11	70	126	343	0	1193
18	E28	53	9	1063	0	31
19	E25	47	4	370	111	426
20	E9	29	1	538	67	29
21	E16	29	0	164	0	64
22	E2	21	0	245	0	81
23	E7	17	1	108	0	95
24	E21	6	1	16	0	673
25	E3	1	0	26	0	72
26	E5	0	0	0	0	45
27	E12	0	0	18	0	13
28	E15	0	0	4	0	14
29	E19	0	0	11	0	23
30	E20	0	0	0	0	53

¹Cases listed in order by no. SNPs with biallelic loss; cases with 100+ SNPs with biallelic loss = ‘higher loss cases’, <100 = ‘lower loss cases’

ISSN: 1471-2164