Fig. 6
From: Novel protocol for mapping virus integration sites in genes involved in therapy resistance
Detection of reported and new VIS loci in mixed and diluted samples evaluated by LM-NEO-PCR alone or combined with NEO-capture. Evaluation of the VIS-NGS performance in composed mixed and diluted samples. The LM-NEO-PCR alone or combined with NEO-capture before (neo-PCR) or after (PCR-neo) were used to detect VIS loci in composed DNA samples with 2 or 4 pure clones mixed and diluted up to a clone proportion of 1%. (A) The VIS loci detected in mixed samples with 20% and 25% of each clone. Seventeen of the 25 reported and new loci identified in single clones were detected in these mixed samples. (B) and (C) Present the VIS loci detected in diluted samples containing either a proportion of 2.5% for clones VIII-18, VIII-24, and XI-7 (B) and of 9% or 1% for clones VIII-18 and VIII-24 (C). Half of the reported VIS loci were detected in samples containing a proportion of 1% for one clone. (D) and (E) show the number of all and reported/new loci detected in negative controls (D) and in mixed and diluted samples (E) after LM-NEO-PCR alone, PCR-capture, of capture-PCR. The numbers are presented for three thresholds of read depth coverages (> 1 RPM, > 100 RPM, > 1000 RPM).
