Table 2

Predicted regions of homozygous deletiona

Cell line or tumorSize rangeb (Mb)CytobandcCandidate genedInferred copy numbereMeasured copy numberf
NCI-H16480.21–0.53p14.2 FHIT 00.00012
NCI-H16480.39–0.689p21.3 P16 00.00021
NCI-H16481.88–4.5Xq21.31-Xq21.3300.00090
NCI-H21410.26–0.8310p12.100.015
HCC11870.05–1.0114q23.200.0069
HCC15994.06–4.164q35.1-q35.200.00028
HCC19370.76–2.0410q21.300.0012
HCC382.48–5.863p12.3-p12.200.00019
HCC3810.05–10.729p21.3-p21.1 P16 00.00063
HCC13950.43–2.036q16.100.00033
HCC13952.88–4.436q16.3-q2100.000081
HCC13950.12–1.611p13-p1200.000083
HCC13957.99–10.3713q14.3-q21.200.0013
HCC13950.74–2.53Xq21.1-q21.200.000083
MCF70.22–0.43q13.3100.12
103720.84–1.011p13.1-p1202.31
103721.83–6.0419p13.301.21
  • a Predicted regions of at least 1 kb in size containing at least two single nucleotide polymorphisms (SNPs) with inferred copy number = 0.

  • b Based on hg12 human genome assembly. Minimal and maximal size range based on the SNP positions and locations described in Supplementary Table 3.

  • c Based on hg12 position (Supplementary Table 3).

  • d Known or previous candidate tumor suppressor gene within maximal region.

  • e Inferred by dChip analysis of SNP arrays.

  • f Measured by quantitative real-time PCR with candidate or randomly selected region with reference to LINE-1 control. The locus tested and primer sequences are described in Supplementary Table 1.