title: WXS of homo sapiens: adult female
design: DNA was extracted using the Qiagen All Prep Universal kit. DNA sequencing was performed at the Yale Center for Genome Analysis. The quality and quantity of DNA were tested on the Agilent 2100 Bioanalyzer system. DNA was sheared to a mean fragment length of 220 bp using the Covaris E210 instrument, purified by Magnetic AMPure XP Beads (Beckman Coulter), and labeled with a 6-base barcode during PCR amplification. Exomes were captured using the IDT xGen Exome Research Panel v1.0 and libraries were sequenced on Illumina HS4000 Illumina instrument using 100-base pair paired-end reads by multiplexing four tumor samples per lane. The same DNA extraction and sequencing methods were used for blood, tumor, and normal adjacent breast tissue samples.