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Figure 3 | BMC Genomics

Figure 3

From: SNP array profiling of mouse cell lines identifies their strains of origin and reveals cross-contamination and widespread aneuploidy

Figure 3

CLASP identifies contamination and copy number aberration in cell lines. Visualizations of genome-wide intensity distributions for A) a sample with cross-contamination (W4/129S6); B) a normal sample from primary tissue (CAST/EiJ x A/J); and C) an aneuploid sample (OB1xB3). Top tracks: B allele frequencies. Each data point represents a marker and is colored by genotype call, AA (blue), AB (purple) or BB (red). Middle tracks: Log R ratios. The red line is the smoothed mean LRR, and the upper and lower bands represent one standard deviation greater and lower than the mean, respectively. Markers colored red have values lying outside the range [-2,2]. Lower tracks: copy number intervals identified by genoCNA. Colors represent the different HMM states (see Sun et al. [24]).

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