title: Targeted sequencing of cancer cell line dilutions: HCT116 diluted into MM1S (1%)
design: Illumina-compatible NGS libraries were prepared from each dilution point from cell line genomic DNA. Briefly, 60 ng DNA was sheared before library construction using a Covaris  M220 sonicator (Covaris, Woburn, MA, USA) for 180 fragments. The DNA libraries were constructed using the KAPA Hyper Prep kits (#KK8504, Kapa Biosystems, Wilmington, MA, USA) with custom UMI-containing adapters. Following end repair and A-tailing, adapter ligation was performed overnight using 100-fold molar excess of adapters. Agencourt AMPure XP beads (Beckman-Coulter) were used for library clean up and ligated fragments were amplified between 4 cycles using 0.5 uM Illuminal universal and sample specific index primers.