Figure 2

Fragment size analysis. (A) Fragment size distribution of 5 HGSOC patients and panel of healthy controls. The vertical dashed lines are placed on the fragment sizes between 52 and 172 bp where 10 bp periodicity is observed. The vertical lines at 240 and 324 bp show the range at which a shift in the di-nucleosomal peak occurs between HGSOC patients and healthy controls. The inset plot enlarges the density profile in the di-nucleosomal fragment length range. (B) Copy number aberration analysis of all technical replicates comprising of different fragment length ranges as indicated by figure legend. The cancer cell fraction (CCF) was measured for each dataset with and without fragment selection. The relative CCF on the y-axis is the ratio of these two estimates. Above each plot, the TP53 MAF, as determined by TAm-Seq is shown for each patient (C) The average relative copy number values from the 10 replicates of patient 2. The different colors indicate different size selection ranges as well as no size selection. Corresponding data from the other patients are shown in supplementary Fig. 3.