Fig. 3
From: XenofilteR: computational deconvolution of mouse and human reads in tumor xenograft sequence data
The effect of mouse reads in PDX samples. a: Integrative Genome Viewer (IGV) image of exon 5 of PTEN. Top panel shows mouse DNA mapped to the human reference genome, middle panel melanoma PDX sample M005.X1 with 25% mouse stroma and bottom panel melanoma PDX sample M029.X1 with 1% of mouse stroma. Each grey horizontal line represents a single sequence read. Base pair differences between human reference genome and sequence reads (SNV) are indicated with a color (depending on the base pair change). b: Overlap between somatic SNVs detected in PDX, with high percentage mouse stroma (M005.X1), and low percentage of mouse stroma (M029.X1). c. The edit distance of sequence reads from mouse DNA aligned to a human reference genome (top panel) and from human DNA mapped to a human reference genome (bottom panel)