WXS of Pt5: Normal
Genomic DNA was sheared, end repaired, ligated with barcoded Illumina sequencing adapters, amplified, and size selected. WES was performed using an Illumina Nextera Rapid Capture Exome version 1.2 bait set. The Illumina exome specifically targets approximately 37.7 Mb of mainly exonic regions made up of all targets from the Agilent exome design (Agilent SureSelect All Exon V2), all coding regions of Gencode V11 genes, and all coding regions of RefSeq gene and KnownGene tracks from the UCSC genome browser (http://genome.ucsc.edu). Resulting libraries were then qPCR quantified, pooled, and sequenced with 76 base-paired end reads. Pooled libraries were normalized to 2 nM and denatured using 0.2 NaOH before sequencing. Data were analysed using the Broad Picard Pipeline, which includes de-multiplexing, duplicate marking, and data aggregation.