hum0291-v1Release info

Elucidation of molecular mechanisms of tumorigenesis and development of diagnoses and treatments based on comprehensive genomic analyses in pancreatic tumors, duodenal tumors and biliary tumors

Aims

To investigate the molecular mechanisms of tumorigenesis based on the comprehensive genome profiling in pancreatic tumors, duodenal tumors, and biliary tumors

Methods

Genomic DNA was extracted from frozen tissues using QIAamp DNA Mini Kit for whole-genome sequencing (WGS) or from FFPE tissues using QIAamp DNA FFPE Tissue Kit for whole-exome sequencing (WES). For WGS, short-fragment libraries (insert size 350 bp) were prepared with 1-2 μg aliquots of genomic DNA from tumor and matched non-neoplastic tissues using a TruSeq DNA PCR-Free Library Prep Kit according to the manufacturer's instructions. Paired-end sequencing of the libraries was performed using a HiSeq 2000/2500 sequencer. Whole-exome capture libraries were prepared from tumor and matched non-tumor DNAs using a TruSeq Exome Library Prep Kit, according to the manufacturer's instructions. DNA libraries were sequenced in a paired-end mode with 100-bp reads, using HiSeq 2000/2500 sequencer. Total RNA was extracted from frozen tissues using Illustra RNAspin Mini RNA Isolation Kit. Whole-transcriptome sequencing libraries were prepared using the TruSeq RNA Access Library Prep Kit. Sequencing was performed on HiSeq 2500 sequencer.

Participants/materials

Pancreatic tumor, Duodenal tumor, Biliary tumors

URL

• https://resou.osaka-u.ac.jp/en/research/2021/20211209_1 (opens in a new tab)

Principal investigator

Shinichi Yachida

Affiliation

Cancer Genome Informatics, Department of Genome Biology, Graduate School of Medicine/Faculty of Medicine, Osaka University