Figure 5
From: Deciphering clonality in aneuploid breast tumors using SNP array and sequencing data
FACS ploidy profiles. FACS ploidy profiles (upper panels, number of cells versus cell ploidy) and grid plots (lower panels) of three actual data samples. Peaks at 50 K in the FACS profile correspond to diploid cells. (a) Sample 11 has multiple subclones suggested by multiple peaks in the FACS profile. Some peaks comprise approximately the same cell fraction (peak height). (b) A grid pattern appears in the sample 11 grid plot, but since the FACS profile reveals several subclones of the same size, assumption 1 is not reasonable and integer CNs cannot be located to specific subclones: CN alteration which agrees with the lattice points could originate from any of the subclones of the corresponding size. (c) The sample 29 FACS profile suggests that the largest non-diploid subclone has ploidy 3 to 4. (d) The sample 29 grid plot suggests a subclone with ploidy 3.05 if g6 = 1, ploidy 5.05 if g5 = 1, ploidy 7.05 if g4 = 1, and so on. The FACS profile and grid plot thereby together suggest that g6 = 1 for sample 29. DNA Index (DI) is a measurement of ploidy.