Figure 5

LOH regions. The plot shows LOH detected across the genome in 22 IDC samples. The genotype calls were generated using the BBRLMM algorithm. HMM was used to isolate those regions with a high probability to be loss events based on the genotype error and the expected heterozygous frequency at each SNP. The tumor numbers have the largest numbers closest to the chromosome. It can be seen that tumor 1, the furthest from each chromosome shows many regions of LOH including whole chromosome allelic loss of 1,6 and 17.