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Primeur weekly 2019-03-11

Focus

Interview with EuroHPC JU interim executive director Gustav Kalbe ...

Quantum computing

9,1 million euro for trinational quantum research ...

IBM achieves highest quantum volume to date and establishes roadmap for reaching quantum advantage ...

Microsoft Quantum Team is announcing the Microsoft Quantum Network ...

Los Alamos National Laboratory upgrades to D-Wave 2000Q quantum computer ...

New hurdle cleared in race toward quantum computing ...

Focus on Europe

Hyperion Research invites submissions for HPC Innovation Excellence Awards ...

Optalysys launches world's first commercial optical processing system, the FT:X 2000 ...

SDSC's Research Data Services to host first U.S. GO FAIR Office ...

Intel to support the Irish Centre for High End Computing on new collaborative quantum computing project ...

New simulation methods to visualise quantum effects in superfluid fermions ...

Middleware

International team to organize 2019 survey of MPI usages ...

Energy Laboratory chooses Qumulo's file storage for its computational science centre ...

Hardware

Mellanox showcases live system demonstrations of LinkX 200G & 400G cables and transceivers at OFC 2019 ...

Alan D. George named Interim Director of the Pittsburgh Supercomputing Center ...

ScaleMP and AMD announce strategic collaboration for scale-up EPYC servers ...

NVIDIA to acquire Mellanox for $6,9 billion ...

Air Force Research Laboratory introduces new sharable supercomputing capability for classified research ...

Applications

High CO2 levels can destabilize marine layer clouds ...

Using supercomputers to checkmate cancer ...

Revealing the role of neutron stars in gravitational wave discoveries ...

UC San Diego scientists computationally model chemical realities of water ...

TACC assists in massive data collection effort in lung development to help premature babies ...

New AI tool revolutionizes process for matching cancer patients with clinical trials ...

Raph Hix models the inner workings of supernovae on the world’s most powerful supercomputers ...

EPFL researchers simulate the process of adhesive wear ...

The Cloud

Oracle participates in National Science Foundation Cloud for scientific research project ...

New AI tool revolutionizes process for matching cancer patients with clinical trials


(From left) ORNL Associate Laboratory Director for Computing and Computational Sciences Jeff Nichols; ORNL Health Data Sciences Institute Director Gina Tourassi; DOE Deputy Under Secretary for Science Thomas Cubbage; ORNL Task Lead for Biostatistics Blair Christian; and ORNL's TOP Project Lead Ioana Danciu were invited to the White House to showcase an ORNL-developed digital tool aimed at better matching cancer patients with clinical trials.
4 Mar 2019 Oak Ridge - A team of researchers from the Department of Energy's Oak Ridge National Laboratory (ORNL) Health Data Sciences Institute have harnessed the power of artificial intelligence to better match cancer patients with clinical trials. The researchers were one of ten teams to develop a digital tool to address complex challenges relevant to medical conditions such as cancer and Lyme disease as part of The Opportunity Project (TOP) Health Sprint, a 14-week effort sponsored by the Census Bureau, coordinated by the Department of Health and Human Services, and led by two Presidential Innovation Fellows.

The TOP tools rely on emerging technologies and were built using open data from governmental agencies such as the National Cancer Institute (NCI) and the Department of Veterans Affairs. The sprint was intended to strengthen collaborations between technologists, issue experts, and community leaders to address real-world challenges and improve patient lives.

"One of the major obstacles facing cancer trial eligibility is the unstructured nature of the data", stated ORNL's TOP Project Lead Ioana Danciu. "Artificial intelligence and natural language processing tools refine and advances the process of matching cancer patients to promising clinical trials."

The team, which includes Health Data Sciences Institute Director Georgia Tourassi and ORNL researchers Blair Christian and Shamimul Hasan, developed a novel knowledge graph that presents information in a way that tools can be constructed to extract meaningful information from vast reams of unstructured text.

By applying unsupervised machine learning and large-scale graph analytic methodologies, approaches similar to what Netflix uses to recommend programmes and movies to customers, the team aims to find clinical trials with related goals.

ORNL's "SmartClinicalTrials" capability builds upon an existing NCI-DOE collaboration in which ORNL researchers lead a pilot effort to expand cancer surveillance capabilities and build statistical models capable of predicting the clinical course and outcomes for different types of cancer.

The TOP team added clinical trial data to an exascale knowledge graph that connects data from disparate sources such as electronic health records, medical ontologies, and public datasets. "These tools make it possible to store the information and continuously add new information in a manner that allows for computational analysis and knowledge discovery down the road", Ioana Danciu stated.

"Through the Health Data Sciences Institute, ORNL is building scientific capabilities to address nationally relevant problems in biomedical science and the healthcare delivery space", stated Georgia Tourassi. "Exercises such as the TOP sprint allow us to have a focused problem on which to catalyze research while simultaneously showing the power of cross-agency collaboration in enabling new insights from government data. This sprint illustrated that to democratize science, accelerate discovery, and create a useful product for the cancer community, we need a collaboration that unites open health care data, domain expertise and compute resources."

The research was also informed and enabled by ORNL's AI Initiative, which harnesses the laboratory's unique suite of expertise, compute capabilities, and user facilities to accelerate scientific breakthroughs and enhance national security.

The Initiative has already demonstrated new capabilities in materials science, engineering design, accelerated learning, and scalability. For example, ORNL researchers have shown that machine learning algorithms can be used to extract information from signals with low signal-to-noise ratios; developed algorithms capable of accelerating modeling and simulation with very little training data; and designed novel biomimetic neuromorphic devices capable of detecting epileptic seizures.

"ORNL's investment in AI, together with its expertise in science, computing, and engineering and its world-class facilities, positions the lab to continue its leadership in science and national security", stated ORNL's Director of Artificial Intelligence Program David Womble.

The TOP team's work represents the first "health challenge" issued under the Census Bureau-Department of Health and Human Services partnership and is a demonstration of ORNL's AI capability in the space of health data science.

"This was an exploratory project", stated Ioana Danciu. "Ultimately, we are interested in unleashing the power of the unique computing resources and data science expertise available within ORNL to find end-to-end solutions to big problems with broad societal impact, and clinical trial patient matching certainly fits that description."

She added that other challenge participants were large commercial companies, and the team would like to collaborate with industry to further realize the potential of AI in revolutionizing cancer trials, and cancer management more broadly.

"Being able to draw from ORNL's pool of scientific expertise and build on existing research pieces to enable progress highlights the imperative nature of the local, federal, and global AI initiatives", Georgia Tourassi stated.
Source: Oak Ridge National Laboratory - ORNL

Back to Table of contents

Primeur weekly 2019-03-11

Focus

Interview with EuroHPC JU interim executive director Gustav Kalbe ...

Quantum computing

9,1 million euro for trinational quantum research ...

IBM achieves highest quantum volume to date and establishes roadmap for reaching quantum advantage ...

Microsoft Quantum Team is announcing the Microsoft Quantum Network ...

Los Alamos National Laboratory upgrades to D-Wave 2000Q quantum computer ...

New hurdle cleared in race toward quantum computing ...

Focus on Europe

Hyperion Research invites submissions for HPC Innovation Excellence Awards ...

Optalysys launches world's first commercial optical processing system, the FT:X 2000 ...

SDSC's Research Data Services to host first U.S. GO FAIR Office ...

Intel to support the Irish Centre for High End Computing on new collaborative quantum computing project ...

New simulation methods to visualise quantum effects in superfluid fermions ...

Middleware

International team to organize 2019 survey of MPI usages ...

Energy Laboratory chooses Qumulo's file storage for its computational science centre ...

Hardware

Mellanox showcases live system demonstrations of LinkX 200G & 400G cables and transceivers at OFC 2019 ...

Alan D. George named Interim Director of the Pittsburgh Supercomputing Center ...

ScaleMP and AMD announce strategic collaboration for scale-up EPYC servers ...

NVIDIA to acquire Mellanox for $6,9 billion ...

Air Force Research Laboratory introduces new sharable supercomputing capability for classified research ...

Applications

High CO2 levels can destabilize marine layer clouds ...

Using supercomputers to checkmate cancer ...

Revealing the role of neutron stars in gravitational wave discoveries ...

UC San Diego scientists computationally model chemical realities of water ...

TACC assists in massive data collection effort in lung development to help premature babies ...

New AI tool revolutionizes process for matching cancer patients with clinical trials ...

Raph Hix models the inner workings of supernovae on the world’s most powerful supercomputers ...

EPFL researchers simulate the process of adhesive wear ...

The Cloud

Oracle participates in National Science Foundation Cloud for scientific research project ...