Targeted DNA sequencing and bioinformatics’ processing
tumor
TUMOR
The DNA sequencing was performed using the in-house generated Next-Generation Sequencing (NGS) panel DRAGON (Detection of Relevant Alterations in Genes involved in Oncogenetics), comprising 571 genes. To generate indexed paired-end libraries of tumor DNA, the Agilent SureSelect XT2 library prep kit (Agilent Technologies, Santa Clara, CA) was employed, enabling targeted sequencing of regions of the genome spanning 2.7 Mb. The library construction followed the manufacturer’s protocol, using around 100 ng of input DNA. The sequencing was performed on a NovaSeq 6000 (Illumina) S2x150 bp flow cell (Illumina Inc., San Diego, CA).Read mapping: in the initial analysis, reads were aligned to the human reference genome (hg19 assembly) using ‘BWA’ mem software