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
- Can precision medicine make chemotherapy a thing of the past?on November 30, 2019 at 9:07 pm
These “precision medicine” therapies fall into two categories: targeted therapies that work by exploiting or disrupting changes that happen within cancer cells’ DNA, and immunotherapies, which enhance ...
- Precision Medicine Market 2019 Strategic Analysis, Clinical Research And Development Outlook 2025on November 29, 2019 at 9:20 am
Nov 29, 2019 (Market Insight Reports via COMTEX) -- The global Precision Medicine Market: The research study has been prepared with the use of in-depth qualitative and quantitative analyses of the ...
- Qatar showcases precision medicine expertise at Biobanking meeton November 27, 2019 at 11:38 am
Qatar’s efforts to advance precision medicine have been showcased to the world of biobanking at an international conference in the US. Qatar Biobank director Dr Nahla Afifi was one of a select group ...
- Qatar’s progress in precision medicine highlighted as CUDOS concludeson November 26, 2019 at 9:45 pm
The third annual Congress of Current Understanding in Diabetes, Obesity and Related Syndromes (CUDOS) with a main focus on paediatric precision medicine concluded, yesterday. The three-day Congress ...
- The State of Personalized/ Precision Medicineon November 25, 2019 at 2:34 pm
Read the full report: https://www.reportlinker.com/p05828589/?utm_source=PRN Personalized and precision medicines use information about a person's genes, proteins, and environment to prevent, diagnose ...
- CUDOS 2019 focuses on paediatric precision medicineon November 24, 2019 at 9:51 pm
The Congress held under the theme ‘Innovative Concepts in Modern Diabetes Management’, focuses on paediatric precision medicine, genomics and clinical research, as well as the care and treatment of ...
- ‘Golden era’ of vaccines is on the horizon with precision medicineon November 24, 2019 at 2:19 pm
A “golden era” of genetically tailored vaccines is on the horizon, with precision medicine aimed at killers like the flu, HIV and opioid addiction, and one Boston Children’s Hospital doctor is at the ...
- Artificial intelligence for precision medicine in neurodevelopmental disorderson November 21, 2019 at 2:17 am
The ambition of precision medicine is to design and optimize the pathway for diagnosis, therapeutic intervention, and prognosis by using large multidimensional biological datasets that capture ...
- Precision Medicine Software Market Rising Trends, Demands and Production Growth 2019 to 2026on November 19, 2019 at 11:57 pm
The precision medicine software market is segmented on the basis of delivery mode, end user, application, and region. Based on delivery mode, the precision medicine software market is classified into ...
via Bing News