Extended Data Fig. 9: Supporting data for Fig. 6.
From: ChIP-seq of plasma cell-free nucleosomes identifies gene expression programs of the cells of origin
a, Levels of CRC associated genes in different samples. Each point is a sample plotted with % CRC (x-axis) vs. normalized number of reads of the gene (y-axis). Solid points - the signal of the gene is significantly above the expectation given % CRC (Methods). b, Example of immune-related genes in CRC samples. Same as (A). c, Clustering of gene set enrichment in CRC samples (see Supplementary Table 11). d, Venn diagram of overlaps between cancer gene signatures that were identified in our analysis. e, Evaluation of cancer signatures in CRC samples from TCGA, grouped by their CMS subtype. Box limits: 25% –75% quantiles, middle: median, upper (lower) whisker to the largest (smallest) value no further than 1.5 * inter-quartile range from the hinge.
