FIGURES AND TABLES

Figure 1.

Loss of heterozygosity in chromosomes 6, 8, 10, 13, 16 and 21 in microdissected prostate cancer tissue as determined by dChip. Loss of heterozygosity regions (blue), retained regions (yellow) and uninformative (white) covering the genome in 39 individual samples of matched tumour and germ line. Each column represents one tumour/germline pair. Additionally, along the right-hand side of each figure within the grey shaded box is the average LOH score for the 39 samples. Cytoband for the individual chromosomes is shown on the left-hand side. Chromosomes 1–22 are shown in Supplementary Figure 4.

Figure 2.

Correlation between LOH and genomic copy number alterations in SNPs showing LOH. The signal intensity value for a particular SNP was calculated for all tumours with LOH in that particular SNP and plotted with a colour that indicates the number of tumours with LOH. Dotted lines correspond to a significance level of 1%. The widths of these vary because some SNPs experience more LOH than others. Single-nucleotide polymorphisms with signal intensities outside the 1% significance level threshold are considered to represent genomic copy numbers different from 2 (if positive >2 and if negative <2). Areas for which LOH and copy number reductions seem to be positively correlated include 6q, 8p, 10q, 13q, 16q and 21q. Inserted colour code shows number of samples with LOH.

Figure 3.

Signal intensities in chromosome 8. Genomic differences between tumour subgroups were identified based on signal intensities. For each group, the signal intensity was calculated and plotted. The significance of the difference of the group means was calculated using a permutation test. Group of metastatic disease (blue) and localised disease (green). Significance is indicated on top: P0.01 (brown), 0.01P0.02 (red), 0.02P0.05 (orange).

Table 1 - Identification of common genomic alterations (LOH) in prostate cancer.