{"database":"EGA","file_versions":[],"scores":null,"additional":{"omics_type":["Genomics"],"dataset_type":["N/A"],"full_dataset_link":["https://ega-archive.org/datasets/EGAD00001015362"],"sample_count":["145"],"description":["EGA dataset EGAD00001015362"],"repository":["EGA"],"title":["NEOPREDICT-Lung: longitudinal whole exome sequencing of non-small cell lung cancers under immunotherapy"],"additional_accession":[]},"is_claimable":false,"name":"2861f5de-e05d-42a6-a8f7-c935bfab2af7 - samples","description":"In 43 patients pretreatment tumor biopsies, resected tumors and normal tissue of sufficient quality and quantity were obtained to longitudinally explore the mutational profiles of a comprehensive set of cancer-related genes.\nFor tumor samples, one to four FFPE sections (10 µm thickness, number depending on sample size) were lysed for genomic DNA isolation. Isolation was performed semi-automatically on the Maxwell purification system (Maxwell RSC DNA FFPE Kit, AS1450, Promega) as specified by the manufacturer. DNA was eluted in 50 µl RNase-free water and quantified fluorescently for library preparation using a Qubit 2.0 fluorometer (Life Technology) with its appertaining DNA broad-range assay. Corresponding normal DNA was isolated from blood or PBMCs using routinely available QIAGEN technology. DNA was stored at -20°C before use. \nWhole-exome sequencing (WES) was performed using the Twist Human Core + RefSeq + Mitochondrial Panel (Twist Bioscience), and 2 x 100 bp fragment sizes were sequenced using a NovaSeq6000 (Illumina). Demultiplexing of sequenced reads was achieved using bcl2fastq (version 2.2).","dates":{"updated":"2024-05-06 16:10:50"},"accession":"EGAD00001015362","cross_references":{"TAXONOMY":["9606"],"EGA":["EGAC00001003479","EGAS00001007753"]}}