Researchers develop a pipeline to enable fast, accurate image processing for precision medicine
One of the main tools doctors use to detect diseases and injuries in cases ranging from multiple sclerosis to broken bones is magnetic resonance imaging (MRI). However, the results of an MRI scan take hours or days to interpret and analyze. This means that if a more detailed investigation is needed, or there is a problem with the scan, the patient needs to return for a follow-up.
A new, supercomputing-powered, real-time analysis system may change that.
Researchers from the Texas Advanced Computing Center (TACC), The University of Texas Health Science Center (UTHSC) and Philips Healthcare, have developed a new, automated platform capable of returning in-depth analyses of MRI scans in minutes, thereby minimizing patient callbacks, saving millions of dollars annually, and advancing precision medicine.
The team presented a proof-of-concept demonstration of the platform at the International Conference on Biomedical and Health Informatics this week in Orlando, Florida.
The platform they developed combines the imaging capabilities of the Philips MRI scanner with the processing power of the Stampede supercomputer – one of the fastest in the world – using the TACC-developed Agave API Platform infrastructure to facilitate communication, data transfer, and job control between the two.
An API, or Application Program Interface, is a set of protocols and tools that specify how software components should interact. Agave manages the execution of the computing jobs and handles the flow of data from site to site. It has been used for a range of problems, from plant genomics to molecular simulations, and allows researchers to access cyberinfrastructure resources like Stampede via the web.
“The Agave Platform brings the power of high-performance computing into the clinic,” said William (Joe) Allen, a life science researcher for TACC and lead author on the paper. “This gives radiologists and other clinical staff the means to provide real-time quality control, precision medicine, and overall better care to the patient.”
For their demonstration project, staff at UTHSC performed MRI scans on a patient with a cartilage disorder to assess the state of the disease. Data from the MRI was passed through a proxy server to Stampede where it ran the GRAPE (GRAphical Pipelines Environment) analysis tool. Created by researchers at UTHSC, GRAPE characterizes the scanned tissue and returns pertinent information that can be used to do adaptive scanning – essentially telling a clinician to look more closely at a region of interest, thus accelerating the discovery of pathologies.
The researchers demonstrated the system’s effectiveness using a T1 mapping process, which converts raw data to useful imagery. The transformation involves computationally-intensive data analyses and is therefore a reasonable demonstration of a typical workflow for real-time, quantitative MRI.
A full circuit, from MRI scan to supercomputer and back, took approximately five minutes to complete and was accomplished without any additional inputs or interventions. The system is designed to alert the scanner operator to redo a corrupted scan if the patient moves, or initiate additional scans as needed, while adding only minimal time to the overall scanning process.
“We are very excited by this fruitful collaboration with TACC,” said Refaat Gabr, an assistant professor of Diagnostic and Interventional Imaging at UTHSC and the lead researcher on the project. “By integrating the computational power of TACC, we plan to build a completely adaptive scan environment to study multiple sclerosis and other diseases.”
Ponnada Narayana, Gabr’s co-principal investigator and the director of Magnetic Resonance Research at The University of Texas Medical School at Houston, elaborated.
“Another potential of this technology is the extraction of quantitative, information-based texture analysis of MRI,” he said. “There are a few thousand textures that can be quantified on MRI. These textures can be combined using appropriate mathematical models for radiomics. Combining radiomics with genetic profiles, referred to as radiogenomics, has the potential to predict outcomes in a number diseases, including cancer, and is a cornerstone of precision medicine.”
According to Allen, “science as a service” platforms like Agave will enable doctors to capture many kinds of biomedical data in real time and turn them into actionable insights.
“Here, we demonstrated this is possible for MRI. But this same idea could be extended to virtually any medical device that gathers patient data,” he said. “In a world of big health data and an almost limitless capacity to compute, there is little reason not to leverage high-performance computing resources in the clinic.”
Learn more: REAL-TIME MRI ANALYSIS POWERED BY SUPERCOMPUTERS
Receive an email update when we add a new PRECISION MEDICINE article.
The Latest on: Precision medicine
via Google News
The Latest on: Precision medicine
- The Future of Colorectal Cancer Care is Precision Medicineon June 25, 2020 at 11:20 am
Doctors and researchers are abuzz about the field of precision medicine as it alters the landscape of cancer care. Precision ...
- New class of precision medicine strips cancer of its DNA defenseson June 24, 2020 at 5:55 am
A new precision medicine targeting cancer's ability to repair its DNA has shown promising results in the first clinical trial of the drug class. The new study, designed to test the drug's safety, ...
- Microsoft Azure and Johns Hopkins Medicine have partnered to accelerate precision medicineon June 23, 2020 at 6:31 am
Microsoft Azure and Johns Hopkins Medicine partnered to leverage Microsoft's AI and analytics tools to facilitate precision medicine breakthroughs.
- Assessment of COVID-19's Effect on Precision Medicine Software Market 2020-2024 | Benefits of Precision Medicine to Augment Growth | Technavioon June 22, 2020 at 1:15 pm
Technavio’s in-depth research has all your needs covered as our research reports include all foreseeable market scenarios, including pre- & post-COVID-19 analysis. Download a Free Sample Report The ...
- Roadmap for precision medicine in diabetes careon June 22, 2020 at 10:06 am
A new joint report from the American Diabetes Association (ADA) and the European Association for the Study of Diabetes (EASD) presents the largest venture ever on precision medicine in diabetes. The ...
- Global Precision Medicine Market 2020 Analysis by Manufacturers, End-User, Type, Application, Regions and Forecast to 2026on June 21, 2020 at 8:54 pm
The purpose of this latest market research study titled Global Precision Medicine Market 2020 by Manufacturers, Regions, Type and Application, Forecast to 2026 is to provide a comprehensive and ...
- Amid COVID-19, telehealth may help advance precision medicineon June 19, 2020 at 8:20 am
However, the COVID-19 pandemic has forced telehealth into the mainstream and it might just be the push we needed to bring the benefits of precision medicine to more patients. Reports show that the U.S ...
- Global Tumor Genomics Market (2019 to 2028) - Growing Prominence for Precision Medicine Presents Lucrative Opportunities - ResearchAndMarkets.comon June 19, 2020 at 6:59 am
The "Global Tumor Genomics Market: Focus on Products, Techniques, Applications, End User, Cancer Type, 14 Countries Data, Industry Insights and Competitive Landscape - Analysis and Forecast, 2019-2028 ...
- NIH launches COVID-19 tracking initiatives through 'All of Us' precision medicine programon June 16, 2020 at 2:12 pm
The National Institutes of Health will use its "All of Us" precision medicine research database to power COVID-19 initiatives including antibody testing, online surveys and EHR data collection. The ...
via Bing News