A central research portal for mining pancreatic clinical and molecular datasets and accessing biobanked samples

Author:

Oscanoa J.ORCID,Ross-Adams HORCID,Dayem Ullah Abu Z MORCID,Kolvekar TSORCID,Sivapalan L,Gadaleta EORCID,Thorn GJORCID,Abdollahyan MORCID,Imrali AORCID,Saad A,Roberts RORCID,Hughes C,Kocher HMORCID,Chelala CORCID,

Abstract

AbstractThe Pancreatic Expression Database (PED) is a powerful resource dedicated to the mining and analysis of pancreatic -omics datasets. Here, we demonstrate the biological interpretations that are possible because of vital updates that have transformed PED into a dynamic analytics hub accommodating an extensive range of publicly available datasets. PED now hosts clinical and molecular datasets from four primary sources (Cancer Genome Atlas, International Cancer Genome Consortium, Cancer Cell Line Encyclopaedia and Genomics Evidence Neoplasia Information Exchange) that together form the foundation of omics profiling of pancreatic malignancies and related lesions (n=7,760 specimens). Several user-friendly analytical tools to explore and integrate the molecular data derived from these primary specimens and cell lines are now available. Crucially, PED is integrated as the data access point for Pancreatic Cancer Research Fund Tissue Bank – the only national pancreatic cancer biobank in the UK. This will pioneer a new era of biobanking to promote collaborative studies and effective sharing of multi-modal molecular, histopathology and imaging data from biobank samples (>60,000 specimens from >3,400 cases and controls; 2,037 H&E images from 349 donors) and accelerate validation ofin silicofindings in patient-derived material. These updates place PED at the analytical forefront of pancreatic biomarker-based research, providing the user community with a distinct resource to facilitate hypothesis-testing on public data, validate novel research findings, and access curated, high-quality patient tissues for translational research. To demonstrate the practical utility of PED, we investigate somatic variants associated with established transcriptomic subtypes and disease prognosis: several patient-specific variants are clinically actionable and may be leveraged for precision medicine.

Publisher

Cold Spring Harbor Laboratory

同舟云学术

1.学者识别学者识别

2.学术分析学术分析

3.人才评估人才评估

"同舟云学术"是以全球学者为主线,采集、加工和组织学术论文而形成的新型学术文献查询和分析系统,可以对全球学者进行文献检索和人才价值评估。用户可以通过关注某些学科领域的顶尖人物而持续追踪该领域的学科进展和研究前沿。经过近期的数据扩容,当前同舟云学术共收录了国内外主流学术期刊6万余种,收集的期刊论文及会议论文总量共计约1.5亿篇,并以每天添加12000余篇中外论文的速度递增。我们也可以为用户提供个性化、定制化的学者数据。欢迎来电咨询!咨询电话:010-8811{复制后删除}0370

www.globalauthorid.com

TOP

Copyright © 2019-2024 北京同舟云网络信息技术有限公司
京公网安备11010802033243号  京ICP备18003416号-3