Hiseq2500 reagent kit v3

B16F10 (tumour) cells were expanded in culture to 75% confluence. Total splenocytes (germline) were isolated from a male C57BL/6 colony founder. Genomic DNA was isolated using DNeasy Blood & Tissue kit (Qiagen, cat#: 6950). Whole exome sequencing (WES) libraries were prepared using SureSelectXT Mouse All Exon kits (Agilent, cat# G7550A). Paired-end, 100bp sequencing was performed using HiSeq2500 reagent kit v3 (Illumina, CA) targeted sequencing depths of 300x and 150x for tumour and germline samples, respectively. Sequencing reads were mapped to GRCm38.p6/mm10 using BWA-MEM(37 (link)). Duplicate read marking and base quality score recalibration was performed using GATK/Picard(42 (link)). Somatic variant calling was performed for target regions using MuTect and Strelka with default filters(43 (link)).

B16F10 (tumour) cells were expanded in culture to 75% confluence. Total splenocytes (germline) were isolated from a male C57BL/6 colony founder. Genomic DNA was isolated using DNeasy Blood & Tissue kit (Qiagen, cat#: 6950). Whole exome sequencing (WES) libraries were prepared using SureSelectXT Mouse All Exon kits (Agilent, cat# G7550A). Paired-end 100 bp sequencing was performed using HiSeq2500 reagent kit v3 (Illumina, CA) targeted sequencing depths of 300x and 150x for tumour and germline samples, respectively. Sequencing reads were mapped to GRCm38.p6/mm10 using BWA-MEM^{69 (link)}. Duplicate read marking and base quality score recalibration were performed using GATK/Picard^{70 (link)}. Somatic variant calling was performed for target regions using MuTect and Strelka with default filters^{71 (link)}.