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Table 2 LOH by copy number in ESCC cases by chromosomal arm (N = 30 cases)

From: Genome wide analysis of DNA copy number neutral loss of heterozygosity (CNNLOH) and its relation to gene expression in esophageal squamous cell carcinoma

Chromosomal arm Total no. informative SNPs with LOH No. informative SNPs with LOH and CN = 1 (fraction) No. informative SNPs with LOH and CN = 2 (fraction) No. informative SNPs with LOH and CN = 3 or 4 (fraction)
1p 10,576 2,930 (0.28) 6,522 (0.62) 1,124 (0.11)
1q 8,366 459 (0.05) 7,674 (0.92) 233 (0.03)
2p 11,321 371 (0.03) 10,770 (0.95) 180 (0.02)
2q 23,115 3,015 (0.13) 18,939 (0.82) 1,161 (0.05)
3p 27,593 15,335 (0.56) 12,064 (0.44) 194 (0.01)
3q 7,256 41 (0.01) 4,168 (0.57) 3,047 (0.42)
4p 12,223 4,771 (0.39) 7,452 (0.61) 0 (0)
4q 28,105 9,142 (0.33) 17,905 (0.64) 1,958 (0.04)
5p 1,315 0 (0) 1,259 (0.96) 56 (0.04)
5q 16,537 7,744 (0.47) 8,777 (0.53) 16 (0)
6p 5,622 342 (0.06) 4,870 (0.87) 410 (0.07)
6q 3,365 165 (0.05) 2,773 (0.82) 427 (0.13)
7p 7,389 9 (0) 5,491 (0.74) 1,889 (0.26)
7q 8,001 151 (0.02) 6,452 (0.74) 1,398 (0.17)
8p 8,803 1,580 (0.18) 6,234 (0.71) 989 (0.11)
8q 17,321 47 (0) 4,633 (0.27) 12,641 (0.74)
9p 18,292 2,772 (0.15) 13,333 (0.73) 2,187 (0.12)
9q 31,400 1,965 (0.06) 27,212 (0.87) 2,223 (0.07)
10p 2,739 472 (0.17) 2,063 (0.75) 204 (0.07)
10q 14,651 1,728 (0.12) 12,075 (0.82) 848 (0.06)
11p 9,391 2,367 (0.25) 6,902 (0.73) 122 (0.01)
11q 17,377 5,116 (0.29) 10,422 (0.60) 1,839 (0.11)
12p 5,229 156 (0.03) 3,251 (0.62) 1,822 (0.34)
12q 6,794 67 (0.01) 5,980 (0.88) 747 (0.11)
13q 35,648 5,897 (0.17) 25,964 (0.73) 3,787 (0.11)
14q 10,931 1,484 (0.14) 7,446 (0.68) 2,001 (0.18)
15q 10,194 685 (0.07) 8,313 (0.82) 1,196 (0.12)
16p 1,395 111 (0.08) 1,284 (0.92) 0 (0)
16q 3,127 1 (0) 2,832 (0.91) 294 (0.09)
17p 7,719 324 (0.04) 6,939 (0.90) 456 (0.06)
17q 16,328 38 (0) 14,754 (0.90) 1,536 (0.09)
18p 2,596 488 (0.19) 1,147 (0.44) 961 (0.37)
18q 9,978 3,108 (0.31) 6,838 (0.69) 32 (0)
19p 1,069 1 (0) 1,065 (1.00) 3 (0)
19q 3,505 932 (0.27) 2,482 (0.71) 91 (0.03)
20p 1,278 0 (0) 229 (0.18) 1,049 (0.82)
20q 1,773 60 (0.03) 1,677 (0.95) 36 (0.02)
21q 9,444 3,825 (0.41) 5,599 (0.59) 20 (0)
22q 4,177 621 (0.15) 3,274 (0.80) 222 (0.05)
Range (fraction SNPs with LOH) 0-0.56 0.18-1.00 0-0.82
Median (fraction SNPs with LOH) 0.05 0.71 0.05
Global average (fraction SNPs with LOH) 0.19 0.70 0.11