Figure 1. TRAF6 locus amplification occurs frequently in lung cancer.

(A) Copy number data for 85 lung cancer lines is shown by genomic location (rows). False discovery rates (q values; 0.25 cutoff for significance shown by green line) and scores for amplicons are plotted at each genome position. Individual chromosomes are denoted by white and gray shading; black boxes indicate significant high-level amplifications. (B) Copy number status of chromosome 11p for 2 representative lung cancer lines. The minimally amplified region spanning chromosome 11p13 to 11p12 (32,126,542–37,251,933) and known genes are shown at right. Normalized log₂ signal intensity ratios were plotted and visualized by SIGMA² (32). Vertical lines denote log₂ signal ratios from –1 to +1; copy number gains (red) are to the right of 0. Each dot represents a single probe. (C) A subset of 66 lung cancer samples was analyzed to identify genes whose expression correlated with gene amplification. P values (–log₂) for genes within the minimally amplified region on 11p13 are shown as a histogram. Values above the dashed line denote P ≤ 0.05. (D) IB for TRAF6 and actin in 5 lung cancer lines diploid at 11p13 (N, no 11p13 amplification; H2171, H1395, H2347, H520, and H460) and 4 lung cancer lines with an 11p13 amplification (amp; HCC95, H526, H2171, and SK-MES-1). Densitometric values for TRAF6 protein relative to actin are shown below. (E) TRAF6 mRNA levels were evaluated in lung tumor samples with (n = 13) and without (n = 31) amplification of 11p13. Significance was determined by Mann-Whitney U test. *P < 0.05.