Genomic imbalances in esophageal carcinoma cell lines involve Wnt pathway genes

Table 3 Deletion peaks as detected by the GISTIC algorithm

Cytoband	Location (kb)	Size (Mb)	Frequency (n/5)		Mean log2ratio1	q-value	Genes2
			Hemi	Homo
1p31.1-p31.2	Chr1:66691991-71187083	4.50	3	1	-3.03	0.02	CTH
2q22.1	Chr2:141590067-141951947	0.36	3	2	-1.66	0.19	LRP1B
3p26.3-q29	Chr3:1-199344050	199.34	2	1	-2.90	0.022
3p12.1-p14.2	Chr7:60424050-85108679	24.70	4	1	-2.99	0.02	FHIT, ADAMTS9
4q22.1-q32.1	Chr4:91972774-162358674	70.40	3	2	-2.19	0.02	CASP6, SMAD1
6q24.3-q27	Chr6:147967444-170914576	22.95	2	1	-2.22	0.07
7q33-q34	Chr7:133721542-138880555	5.16	2	1	-1.72	0.09	HIPK2
8p23.2-q11.1	Chr8:4078057-47043375	43.00	4	1	-2.47	0.02	BNIP3L, INDO
8p23.3-q21.13	Chr8:1-146308819	146.31	1	1	-2.27	0.09
9p24.2-p24.3	Chr9:1151516-2459741	1.31	2	1	-2.53	0.03
10p12.31-p14	Chr10:10309026-19155158	408.85	2	1	-2.74	0.02
10q11.23-q22.1	Chr10:50393324-70694787	20.30	1	1	-2.35	0.12
11p11.12-q12.2	Chr11:50256798-61426521	11.20	1	1	-1.90	0.12
12p13.33-q24.33	Chr12:1-132078379	132.10		1	-2.80	0.08
13q21.33-q34	Chr13:68772537-113042980	44.30	1	1	-1.70	0.24
14q21.2	Chr14:42828345-44176016	1.35	3	1	-4.50	0.02
14p13-q32.33	Chr14:1-105311216	105.30		1	-5.10	0.02
18q21.1-q21.2	Chr18:46081464-51919972	5.80	5		-1.03	0.02	DCC, SMAD4
21p13-q21.3	Chr21:1-29932926	29.90	3			0.12	BAGE

¹The mean of the log2ratio of those samples with log2ratios < -1.3 (< 0.9 copies per diploid cell);

²The selected genes within the deletion peaks.