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Figure 4 | BMC Cancer

Figure 4

From: Renal cell carcinoma primary cultures maintain genomic and phenotypic profile of parental tumor tissues

Figure 4

Visualization of chr 3 in 66SML primary culture (upper panel) and parental tissue (lower panel) using CNAG v3.0 software. Chromosome 3 is shown from p to q end (from left to right). The upper two graphs represent single SNP copy number data on log2 scale (red dots) and copy number values locally averaged on 10 contiguous SNPs (blue line), whereas copy number values for each allele (red and green lines) are shown below. Green bars in the middle represent heterozygous SNP calls detected by the software comparing each sample to autologous blood. The three bars at the bottom represent the color-coded visualization of HMM-CN state (yellow, diploidy; pink, amplification; light blue, deletion) and of HMM-LOH state (blue, significant LOH; yellow, no LOH), with LOH likelihood indicated by the thickness of the third blue bar. Boxes on the left report mean CN log2ratio values and mean LOH likelihoods calculated for the whole deleted region in primary culture and tissue, respectively.

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