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The Cancer Genomics Hub (CGHub): overcoming cancer through the power of torrential data.

Authors
  • C, Wilks
  • Ms, Cline
  • E, Weiler
  • M, Diehkans
  • B, Craft
  • C, Martin
  • D, Murphy
  • H, Pierce
  • J, Black
  • D, Nelson
  • B, Litzinger
  • T, Hatton
  • L, Maltbie
  • M, Ainsworth
  • P, Allen
  • L, Rosewood
  • E, Mitchell
  • B, Smith
  • J, Warner
  • J, Groboske
  • And 6 more
Type
Published Article
Journal
Database
Publisher
Oxford University Press
Volume
2014
Source
UCSC Bioengineering biomedical-ucsc
License
Unknown

Abstract

The Cancer Genomics Hub (CGHub) is the online repository of the sequencing programs of the National Cancer Institute (NCI), including The Cancer Genomics Atlas (TCGA), the Cancer Cell Line Encyclopedia (CCLE) and the Therapeutically Applicable Research to Generate Effective Treatments (TARGET) projects, with data from 25 different types of cancer. The CGHub currently contains >1.4 PB of data, has grown at an average rate of 50 TB a month and serves >100 TB per week. The architecture of CGHub is designed to support bulk searching and downloading through a Web-accessible application programming interface, enforce patient genome confidentiality in data storage and transmission and optimize for efficiency in access and transfer. In this article, we describe the design of these three components, present performance results for our transfer protocol, GeneTorrent, and finally report on the growth of the system in terms of data stored and transferred, including estimated limits on the current architecture. Our experienced-based estimates suggest that centralizing storage and computational resources is more efficient than wide distribution across many satellite labs. Database URL: https://cghub.ucsc.edu.

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