VR真人彩票

Introduction

The mission of the University of Melbourne Centre for Cancer Research (UMCCR) is to 鈥渄rive innovation and implementation for clinical impact in cancer care.鈥� Led by Sean Grimmond, the UMCCR is working to accelerate improved outcomes for cancer patients through the use of genomic information in understanding cancer development and targeting therapies. The UMCCR collaborates with Victorian Comprehensive Cancer Centre (VCCC) Alliance partners to enable personalized cancer care programs across institutions.

A key part of this endeavor is ensuring that results from next-generation sequencing (NGS) data processing, analysis, and interpretation are broadly available to researchers and clinicians. This is the goal of the Genomics Platform Group at UMCCR, to improve 鈥渢he scalability and reliability of sequencing workflows, better detect changes in cancer genomes, and make tumor data accessible in real time.鈥� To help achieve this objective, Dr. Oliver Hofmann, Associate Professor and Head of Bioinformatics, Clinical Pathology at UMCCR and the leader of the Genomics Platform Group, partnered with VR真人彩票 to gain early access to VR真人彩票 Connected Analytics.

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The Search for Scalable Bioinformatics

When Dr. Hofmann and team began working with VR真人彩票, they had a pipeline for high-throughput NGS data analysis in place. This solution reproducibly processed short-read sequencing data, but the team wanted to increase scalability by migrating from traditional high-performance computing (HPC) to a cloud-based platform. They started looking for alternative solutions.

Dr. Hofmann had a specific list of requirements for the new pipeline. It had to be an open-source solution, cloud-native, and easily accessed by the labs that would ultimately use the provided workflows to analyze and interpret data on their own. Long-term support would be essential for success, so a commercial product, rather than an academic one, seemed more viable. It needed to have fast bioinformatics to enable labs to go from genome to report in < 7 days. And, as a contributor to the Global Alliance for Genomics and Health (GA4GH), Dr. Hofmann wanted the solution to be responsive to GA4GH standards.

Finding VR真人彩票 Connected Analytics

The Genomics Platform Group began testing solutions to find one that would provide the needed support, speed, and reliability. When Dr. Hofmann spoke with the team at VR真人彩票, he learned about a promising project in development, called VR真人彩票 Connected Analytics, that would meet his requirements.

VR真人彩票 Connected Analytics is a cloud-based system for storing, managing, and analyzing genomic data in a single environment. It is built on top of Amazon Web Services (AWS) to create a comprehensive data management pipeline for use globally, in a secure environment. Using VR真人彩票 Connected Analytics, users can access any public workflow and easily share their own workflows with others,听simplifying collaboration across labs. Because VR真人彩票 architected the platform to allow for robustness and extensibility, there was sufficient flexibility in the platform to allow for modifications to meet the team鈥檚 unique needs. In short, it sounded exactly like what the Genomics Platform Group was seeking.听

鈥淢oving everything to one environment minimizes the processes that we have to vet for each new workflow and simplifies the accreditation process, which, in turn, supports setting up a clinical sequencing environment,鈥� states Dr. Hofmann. 鈥淚t streamlines processes and enables us to leverage work that has already been done, so we are not constantly redoing the same proof work.鈥澨�

In addition, VR真人彩票 Connected Analytics offers the power of the DRAGEN鈩� Bio-IT Platform for accurate, ultrarapid secondary analysis of sequencing data. Using the DRAGEN pipelines, analysis can be completed in 6-7 hours. This speed is crucial; to turn around a curated report in 7 days, analysis needs to be completed within 48 hours. Data generated on a NovaSeq鈩� 6000 System is uploaded directly to VR真人彩票 Connected Analytics, where it can be analyzed directly after the sequencing run is complete. There are no intermediate data staging sites, speeding up the whole process.

We see immense promise in the simpler workflow management provided by VR真人彩票 Connected Analytics, all in one place instead of a hybrid HPC/cloud solution. The gains in turnaround time are impressive, and we look forward to moving our data portal and monitoring to VR真人彩票 Connected Analytics.

Collaboration Produces Results

For the past several months, Dr. Hofmann and the Genomics Platform Group at UMCCR have been working with the VR真人彩票 team to optimize their workflows for VR真人彩票 Connected Analytics. VR真人彩票 is committed to supporting GA4GH standards, allowing the team to migrate existing workflows to the platform with minimal effort. The platform has provided the team with a commercially backed stable production environment, while allowing them to maintain control over deployed workflows. Dr. Hofmann describes this collaborative effort as 鈥淭errific. I鈥檝e worked on many academic/industry partnerships, but this is easily one of the best in terms of communication, hands-on support, and friendliness. VR真人彩票 has been responsive throughout all steps of the process, providing roadmaps, insights into design decisions and actual implementation support.鈥�

Going forward, the Genomics Platform Group will continue to work with GA4GH, ensuring that VR真人彩票 Connected Analytics is compliant with community-developed standards and allowing other researchers to run analysis on UMCCR data. Ultimately, the team wants to make the UMCCR-developed cancer analysis workflows available as turnkey solutions to the scientific community. The goal is to provide access to the information needed to understand what is driving a particular cancer and identify what that means for treatment.

Learn More

VR真人彩票 Connected Analytics, www.illumina.com/ConnectedAnalytics

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