Fig. 3: Altered nucleosome positioning and nucleosome placement.
From: Cell-free DNA from germline TP53 mutation carriers reflect cancer-like fragmentation patterns
A Frequency distribution (top), z-scores (middle), and absolute difference (bottom) of the distance of fragment-ends to the closest nucleosome peak in TP53m-carriers. Healthy TP53-wildtype median is displayed as the black curve in each of the top row panels. Increased fragment-ends are observed within the nucleosome trough in all TP53m-carriers. p-values were calculated using a two-sided Kolmogorov-Smirnov test. B Left: Line plot of the median log2(Observed/Expected) frequencies of each AA/AT/TA/TT and CC/CG/GC/GG dinucleotide contexts from nucleosome spanning (167 bp) fragments in TP53m-carriers. The dinucleotide frequencies 50 bp up and downstream of the fragments are also displayed. The median healthy control is displayed as black lines in each of the left panels. Right: Z-scores of dinucleotide frequencies compared to healthy TP53-wildtype controls. TP53-carriers are separated by cancer status. Increased A/T and decreased C/G dinucleotides are observed in TP53m-carriers. Source data are provided as a Source Data file.
