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Table 3 Deletion regions from the conservative "LOH/Model A"

From: Genome-wide loss of heterozygosity and copy number alteration in esophageal squamous cell carcinoma using the Affymetrix GeneChip Mapping 10 K array

Deletion region no. Chr Cytoband(s) Start (Mb) End (Mb) Size (Mb) No. SNPs in each deletion region Genes in the deletion regions*
1 3 3p26 4.34 5.26 0.92 5 SUMF1 MRPS10P2 LOC401048 ITPR1 BHLHB2 LOC442073 ARL10C EDEM1
2 3 3p24-p22 31.02 33.39 2.37 5 LOC339897 LOC391524 SIMP OSBPL10 LOC344787 KIAA0089 LOC402126 CKLFSF8 CKLFSF7 KKLFSF6
        LOC285260 DNCLI1 LOC391526 CNOT10 LOC389101 LOC389102 LOC131405 CCR4 GLB1CRTAP
        KIAA0527 FBXL2 UBP1*
3 4 4p15.3 9.9 9.91 0.01 5 NA
4 4 4q13 72.58 74.06 1.48 6 SLC4A4 GC LOC441023 GPR74 ADAMTS3 LOC391669 FLJ1305
5 4 4q22 86.78 88.62 1.84 7 ARHGAP24 MAPK10 PTPN13 SOAT LOC401142 MGC26744 LOC260422 MLLT2 KLHL8 GAPDL4
        FAM13A1 LOC441028 SCDR9
6 4 4q22 90.72 94.98 4.26 6 SNCA MMRN1 MGC48628 TMSL3 LOC389212 LOC133083 GRID2 BMPR1B
7 9 9p23 11.19 12.05 0.86 6 NA
8 9 9p21.3 26.02 27.53 1.51 6 LOC441390 C9orf82 PLAA LRRC19 CCDC2 TEK C9orf14 C9orf11 MOBKL2B IFNK
9 9 9q22.1 86.09 87.21 1.12 6 HBLD2 ZCCHC6 LOC392358 GAS1 LOC157956 FLJ45537 KIAA1529 TMOD1 C9orf197
10 9 9q22.3 97.08 97.42 0.34 5 LOC389777 LOC286359 TDRD7
11 9 9q31.3 102.8 103.35 0.53 5 CYLC2 LOC340511 ZNF618
12 13 13q12.3-q13 30 31.2 1.2 13 C13orf22 ALOX5AP LOC387917 LOC401732 LOC440132 FLJ14834 MGC40178 HSPH1 B3GTL 13CDNA73
13 13 13q13.1-q13.3 32 34.89 2.89 7 PFAAP5 APRIN LOC122038 KL STARD13 RFC3 NBEA DCNAMKL1
14 13 13q13.3 37.13 39.05 1.92 8 TRPC4 Ufm1 DKFZp686J0811 STOML3 C13orf23 LOC387921 LOC390397 LHFP
15 13 13q22 75.3 76.82 1.52 8 KCTD12 BTF3L1 LOC341720 LOC390413 DHX9P CLN5 FBXL3A MYCBP2
16 17 17p13- 0.86 4.32 3.46 5 ABR MRPL14P1 LOC390754 TUSC5 YWHAE CRK MYO1C SKIP PITPN MGC34680 SCARF1 RILP
   p13.2      PRPF8 MGC14376 FLJ33817 SERPINF2 SERPINF1 SMYD4 RPA1 RTN4RL1 DPH2L1OVCA2 HIC1 C17orf31
        LOC440396 SRR FLJ10534 RUTBC1 MNT LOC284009 MGC3329 PAFAH1B1 KIAA0664 GARNL OR1D4
        OR1D2 OR1E3P OR1G1 OR1P1P OR1A2 OR1A1OR1D3P OR3A1 LOC390756 OR3A2 OR1R1P OR1E1
        OR3A3 OR1E2 NYD-SP20 ASPA TRPV3 TRPV1 CARKL CTNS TAX1BP3 MGC2963 P2RX5 GSG2
        ITGAE HSA277841 CAMKK1 P2RX1P2RX1 ATP2A3 ZZEF1 MGC32124 ANKFY1 UBE2G1 MGC29671 LOC124976
17 17 17p12 9.68 10.8 1.12 6 GLP2R RCV1 GAS7 RPS27AP1 MYH13 MYH8 MYH4 MYH1 MYH2 MYH3 SCO1 MDS006 LOC388335
        LOC400573
18 17 17p12 12.52 13.45 0.93 6 MYOCD KIAA0672 ELAC2 HS3ST3A1
19 17 17q22 51.95 52.2 0.25 5 NOG
20 17 17q24 67.83 68.01 0.18 5 LOC146795 LOC440462
Total no. SNPs 125  
  1. *SNPs in genes (exons, introns, or 3'- or 5'-UTRs) are shown in bold.