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Figure 6 | BMC Bioinformatics

Figure 6

From: SIGMA2: A system for the integrative genomic multi-dimensional analysis of cancer genomes, epigenomes, and transcriptomes

Figure 6

Parallel visualization and analysis of the copy number and genotype profiles of the breast cancer cell line HCC2218. Genotype profile of the matching normal blood lymphoblast line (HCC2218BL) is also provided to define regions of LOH. DNA copy number profile was generated on the BCCA whole genome tiling path BAC array and genotype profiles are from the Affymetrix SNP 10K array [28]. This region of chromosome arm 3q has a defined segmental copy number loss and the boundary of the change is evident from the LOH profile. In the genotype profile, the horizontal blue lines indicate a SNP transition from heterozygous in normal to homozygous in the tumor, indicating LOH.

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