Evaluating the reproducibility of SBCapSeq results from bulk cuSCC and normal skin specimens.

Representative plots of individual SB insertion sites based on read depth from two individual cuSCC genomes (A-B) and two unselected skin cell genomes from histologically normal skin (C-D) using genomic DNAs isolated from bulk tumor specimens from biological replicate libraries (independent library workflows applied to the same biological specimen isolate) comparing library 1 (x-axis) to library 2 (y-axis). Biological reproducibility of cuSCC specimen libraries is indicated by both Pearson’s and Spearman’s correlation metrics (A-B). No biological reproducibility of normal skin specimen libraries is observed (C-D) indicated by negative values for Pearson’s and Spearman’s correlation metrics and a failure to identify the same SB insertion sites. Individual SB insertion sites plotted by read depth from two technical replicates (the same library preparation) from two separate sequencing runs (E-F) confirms high reproducibility between individual libraries at high-to-moderate read depths, supported by both Pearson’s (r = 0.48) and Spearman’s (ρ = 0.49 or undetermined) correlation metrics.

(TIFF)