For WES sequencing, DNA from fresh frozen tumor samples or cells was extracted using the DNeasy Blood and Tissue Kit, which was purchased from Qiagen. The genomic DNA was sheared, end-repaired, ligated to barcoded Illumina sequencing adapters, amplified, and size-selected. Whole-exome capture was performed using an Agilent Sure Select Human All Exon 44-Mb version 2.0 bait set (Agilent Technologies) (21 (link)). The resulting libraries were then quantified by qPCR, pooled, and sequenced using 76-basepaired-end reads obtained with HiSeq 2000 or 2500 sequencers (Illumina).
For RNA sequencing, RNA from fresh frozen tumor samples was extracted using the RNeasy Mini Kit. RNA-seq libraries were prepared using an Illumina TruSeq Stranded mRNA Library Prep Kit (for cell suspensions). Flow cell cluster amplification and sequencing were performed according to the manufacturer’s instructions using either a HiSeq2500.
The sequencing data have been deposited in the NCBI Sequence Read Archive (SRA) database under the accession code SRP (https://submit.ncbi.nlm.nih.gov/subs/sra/SUB8559404/overview ).
For RNA sequencing, RNA from fresh frozen tumor samples was extracted using the RNeasy Mini Kit. RNA-seq libraries were prepared using an Illumina TruSeq Stranded mRNA Library Prep Kit (for cell suspensions). Flow cell cluster amplification and sequencing were performed according to the manufacturer’s instructions using either a HiSeq2500.
The sequencing data have been deposited in the NCBI Sequence Read Archive (SRA) database under the accession code SRP (
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