Targeted sequencing of cell line MM1S
DNA was isolated using AllPrep DNA/RNA Kit (Qiagen, Hilden, Germany). Total of 50 ng of DNA was enzymatic fragmented and library was prepared using KAPA HyperPlus Kit (Kapa Biosystems, Wilmington, MA, USA) and SeqCap EZ Kit (Roche NimbleGen, Basel, Switzerland). A total of 4.8 Mb was targeted and designed in two parts. First, 4.2 Mb covering IGH, IGK, IGL and MYC genes focusing on translocations and chromosomal structure abnormalities. Second, 0.6 Mb covering exonic regions of 127 MM-specific genes and 27 chromosome regions for gene mutations and copy-number abnormalities analysis. Hybridization reactions were performed separately for each targeted-enrichment part and samples were finally combined at appropriate ratio to get required depth for chromosome structure abnormalities (~100x) and gene mutations (~250x) part. The DNA quality and quantity were measured by Qubit Fluorometer (Thermo Fisher Scientific, Waltham, MA, USA) and/or 2200 Tapestation (Agilent Technologies, Santa Clara, CA, USA).