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Table 1 LOH by copy number in ESCC cases by individual case (N = 30)

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

Case ID 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)
*1 31,808 2,260 (0.07) 26,801 (0.84) 2,747 (0.09)
2 368 0 (0) 205 (0.56) 163 (0.44)
3 377 0 (0) 139 (0.37) 238 (0.63)
*4 36,175 2,093 (0.06) 27,655 (0.76) 6,427 (0.18)
*5 24 0 (0) 0 (0) 24 (1.00)
*6 14,751 210 (0.01) 12,661 (0.86) 1,880 (0.13)
*7 3,559 0 (0) 2,905 (0.82) 654 (0.18)
*8 2,408 4 (0) 2,217 (0.92) 187 (0.08)
*9 593 1 (0) 266 (0.45) 326 (0.55)
10 17,546 1,075 (0.06) 12,087 (0.69) 4,384 (0.25)
11 78,159 3,678 (0.05) 67,726 (0.87) 6,755 (0.09)
12 41 0 (0) 0 (0) 41 (1.00)
*13 6,113 209 (0.03) 5,154 (0.84) 750 (0.12)
14 13,498 4,084 (0.30) 9,190 (0.68) 224 (0.02)
15 3 0 (0) 3 (1.00) 0 (0)
16 1431 0 (0) 54 (0.04) 1,377 (0.96)
17 16,934 5,732 (0.34) 10,842 (0.64) 360 (0.02)
18 2,107 0 (0) 1,553 (0.74) 554 (0.26)
*19 0 0 (0) 0 (0) 0 (0)
*20 527 0 (0) 137 (0.26) 390 (0.74)
*21 19,954 62 (0) 16,332 (0.82) 3,560 (0.18)
*22 11,180 4,410 (0.39) 6,357 (0.57) 413 (0.04)
*23 14,523 5,939 (0.41) 5,953 (0.41) 2,631 (0.18)
24 15,773 5,672 (0.36) 9,354 (0.59) 747 (0.05)
*25 23,005 20 (0) 17,114 (0.74) 5,871 (0.26)
*26 37,691 21,495 (0.57) 15,229 (0.40) 967 (0.03)
27 12,120 4,500 (0.37) 6,299 (0.52) 1,321 (0.11)
28 494 0 (0) 37 (0.07) 457 (0.93)
*29 18,222 444 (0.02) 15,400 (0.85) 2,378 (0.13)
*30 42,499 16,432 (0.39) 25,394 (0.60) 673 (0.02)
No. cases with SNP LOH fraction = 0 15 3 2
Range (fraction SNPs with LOH) 0-0.57 0-1.00 0-1.00
Median (fraction SNPs with LOH) 0.00 0.60 0.13
Global average (fraction SNPs with LOH) 0.19 0.70 0.11
  1. *Case also examined with Affymetrix U133A 2.0 chip