Recommended
Recommended
More Related Content
What's hot
What's hot (20)
Similar to Building Protected Cancer Data Sharing Networks
Similar to Building Protected Cancer Data Sharing Networks (20)
Recently uploaded
Recently uploaded (20)
Building Protected Cancer Data Sharing Networks
- 1. Building Protected Data Sharing Networks to Advance Cancer Risk Assessment and Treatment Ian Foster (with Ravi Madduri & Brigitte Raumann) University of Chicago foster@uchicago.edu
- 2. Securely, reliably move/sync/backup across tiers 2 Research Computing HPC Desktop Workstation Mass Storage Next-Gen Sequencer National Resources Personal Resources Public Cloud
- 3. Manage data from instruments Analysis store Next Gen Sequencer Light Sheet Microscope MRI Advanced Light Source Personal computer Remote visualization
- 4. Share with collaborators/community Public / private cloud Stores External campus storage EC2
- 5. Publish for discoverability Scholarly Publication Reference Dataset Active Research Collaboration 5
- 8. The RUNX1 International Sequencing Consortium (RISC) Inherited hematological malignancies, Lucy Godley, UChicago Protected Hematologic Cancer Research Network
- 9. Globus data management platform used for data upload and download
- 10. Globus data management platform used for data distribution and access
- 11. • Workflows can be easily defined and automated with integrated Galaxy Platform capabilities • Data management is streamlined using Globus • Resources can be provisioned on-demand with Amazon Web Services cloud-based infrastructure Ravi Madduri et al., University of Chicago Globus Genomics
- 12. Globus security and data management platform leveraged for the NIH Data Commons infrastructure
- 14. ITCR Collaboration with LSU Cancer Center 14 • LSU Health has new, NSF funded network, but cancer researchers can’t use it to full advantage with existing tools. • Cancer center sequence core delivers data on hard drives • Automate secure data management platform for the Louisiana Cancer Research Consortium Translational Genomics Core that leverages the new NSF-funded high performance network and Science DMZ. • Establish network of Globus endpoints in Cancer Center labs to connect LSU Health to collaborators at other institutions, national resources, cloud resources, data portals.
- 15. COSMIC2 Using Globus to build a data service for CryoEM (M. Cianfrocco, UM)
- 16. Credit: Michael Cianfrocco, U. Michigan
- 17. Thank you! • foster@uchicago.edu • More information –Service: globus.org –Documentation: docs.globus.org • Questions: support@globus.org • Follow us: – Twitter: @globus – LinkedIn: globus.org
Editor's Notes
- Enable a network of researchers to assess the genetic basis of hematologic cancer risk. We will work with a system of regional hubs to establish a Protected Hematologic Cancer Research Network for sharing identified data from families to assess the genetic contribution to risk of blood and bone marrow cancers. Data will be generated in one location and secure data movement and sharing via Globus will enable each part of our collaborative network to use common primary sequencing data with synchronized annotations to ask separate, complementary questions, based on a hub’s individual expertise, and will facilitate real-time discussions of centralized data.
- https://imputation.sanger.ac.uk/?instructions=1 This service, operated by the Wellcome Trust Sanger Institute at https://imputation.sanger.ac.uk, allows you to upload files containing genome wide association study (GWAS) data from the 23andMe genotyping service and receive back the results of imputation and other analyses that identify variants genes that you are likely to possess based on those GWAS data (McCarthy et al., 2016).
- The JGI Genome Portal provides unified access to all JGI genomic databases and analytical tools. A user can search, download and explore multiple data sets available for all DOE JGI sequencing projects including their status, assemblies and annotations of sequenced genomes.
- Develop an automated data distribution pipeline for delivery of genomic data. The current data distribution practice at the Louisiana Cancer Research Consortium Translational Genomics Core requires copying sequence data onto physical media We will establish an automated, secure data management platform for the TGC that leverages the new NSF-funded high performance network and Science DMZ to allow near-real time data access by researchers. The solution ensures data integrity, offers fine grained access control permissions, and provides secure data delivery. Data delivery to the end user will be integrated into the experimental workflow of the facility in a way that is reliable and scalable to thousands of users and datasets. TGS staff will have access to administrative and monitoring capabilities that allow them to check for successful transfer of the data. Using the management interfaces provided by Globus, transfer of data by the user can be monitored and the data will be automatically deleted or archived, depending on the policies set by the TGC. The LSU Health Identity Provider will be integrated with Globus to allow researchers to use their familiar login for data management. Aim 2: Connect LSU Health Cancer Center members to data sharing and transfer networks. We will establish a network of five to seven Globus endpoints in laboratories of Cancer Center members, allowing researchers to take full advantage of the new high speed network when exchanging data with collaborators or when transferring data from the TGC. Depending on the needs of LSU Health cancer researcher, we will support installation of Globus endpoints at collaborating institutions that are not already Globus enabled, for example Tulane University and Xavier University of Louisiana. The network of Globus endpoints will not only allow researchers to share data among themselves, but connect them to a broader national and international network of hundreds of institutions and data portals already using Globus to exchange and distribute data.