Chromosome 3. Each column in the picture represents an individual case and shows genotyping in germ-line DNA and matched micro-dissected tumor; LOH is shown in red, retention in blue, and homozygous or "no call" in grey. B indicates blood DNA and T indicates tumor DNA (from matched, micro-dissected sample). To the left of the picture, columns show (from left to right): microsatellite markers, cartoon of the chromosome, and SNPs examined in the 10 K SNP chip. To the right of the picture, red bars show deletion regions (as defined from our conservative "LOH/Model A"), blue bars show regions with CNA losses (from CNAT), and green bars show regions with CNA gains (from CNAT).