WES: T-47D
Libraries were prepared using xGen DNA Library Prep EZ UNI with xGen CS adapters containing UMIs (IDT) from 300 ng tumor and 100 ng normal DNA. Libraries underwent enrichment using the KAPA HyperCapture Kit with HyperExome and custom CNV probes (Roche). Quality control included QuantiFluor dsDNA quantification (Promega) and Fragment Analysis (Agilent). Sequencing was performed in paired-end mode on NextSeq 500 or NovaSeq 6000 (Illumina) using Mid Output Kit v2.5 150 Cycles or SP Reagent Kit v1.5 200 Cycles. Sequencing: Illumina NovaSeq 6000 at  CEITEC Genomics Core Facility (Brno, Czech Republic)