Whole exome sequencing of adult human oral cavity squamous cell carcinoma primary tumor
Library construction was performed as previously described (Fisher et al., 2011). Hybridization and capture were performed using the Rapid Capture Exome Kit (Illumina) per manufacturer protocol. After post-capture enrichment, library pools were quantified using an automated qPCR assay on the Agilent Bravo (Agilent Technologies, Santa Clara, CA). Cluster amplification of denatured templates was performed per manufacturer's protocol using HiSeq 4000 cluster chemistry and HiSeq 4000 flowcells (Illumina). Flowcells were sequenced using v1 Sequencing-by-Synthesis chemistry for HiSeq 4000 flowcells. The flowcells were then analyzed using RTA v.1.18.64 or later (Illumina).