Extended Data Fig. 3: Supporting data for Fig. 2.
From: ChIP-seq of plasma cell-free nucleosomes identifies gene expression programs of the cells of origin
a, Testing gene sets defined by highly expressed in different cancer types (TCGA, Methods) against genes with higher signal in a CRC tumor sample (Fig. 2a). Hypergeometric test with FDR corrected q-values. b, Levels of H3K4me2 coverage over colon-specific enhancers (y-axis) in healthy donors and in CRC cancer samples. 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, n = 144. c, Average coverage of H3K36me3 across gene bodies (meta gene). d, Coverage of H3K36me3 cfChIP-seq over gene bodies in a healthy donor (H012.1) for genes at different leukocyte expression quantiles. 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.
