//Nvidia partners with Scripps to investigate the role of AI in genomics processing and analysis

Nvidia partners with Scripps to investigate the role of AI in genomics processing and analysis

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Nvidia and Scripps Research Translational Institute — a nonprofit research organization — are teaming up to develop genomics processing and analysis tools guided by artificial intelligence (AI). In the course of a partnership announced today, Nvidia data scientists will colocate alongside Scripps genomics experts and bioinformaticists with the goal of studying health care problems “end to end.”

“It’s an extraordinary time in health care and medicine, with the intersection of massive datasets and our expertise in wearable sensors and genomics,” Dr. Eric Topol, founder and director of Scripps Research Translational Institute and professor at Scripps Research, told VentureBeat in a phone interview. “That’s what the Institute was founded on 12 years ago.”

The firms’ joint research will focus on whole genomic sequences (the complete DNA sequence of an organism’s genome), continuous physiologic wearable devices and other sensors, and illness prevention — specifically digital sensing prediction of atrial fibrillation, an irregular heartbeat that increases the risk of stroke. Future work will involve as-yet unselected diseases and datasets.

Scripps will supply the bulk of the research datasets, one of which contains over 1,000 continuous heart rhythm recordings (another comprises the whole genomic sequences of 1,400 people ages 80 and older who’ve never been sick). And researchers from both companies will employ a combination of bespoke neural networks and pretrained models in research data experiments. Assuming all goes well, they’ll package up their work and tools and make them broadly available through open source.

“The goal is to provide methods and infrastructures to the research community at large,” Kimberly Powell, vice president of healthcare at Nvidia, said. “We’re seeing pretty massive breakthroughs [in the field]. Dozens of algorithms are becoming FDA approved now, [and some of them] are transforming the radiology workflow … Radiology and imaging have ridden on the coattails of breakthroughs driven by imaging and video.”

Powell’s not wrong.

Companies like Deep Genomics use machine learning to identify patterns in large genetic datasets and draw connections to cellular processes. And in 2017, Google released an open-source tool called DeepVariant that uses machine learning to identify all mutations that a person inherits from their parents. (It took first prize in a 2016 FDA contest promoting improvements in genetic sequencing.) Meanwhile, direct-to-consumer genomics companies like 23andMe have begun using machine learning to map the impact of individuals’ genetic material on phenotypes such as weight.

Pharmacogenomics — which examines the role of genetics in the context of how a person responds to drugs — is another field that’s seen encouraging progress. Genoox, a startup that raised $6 million in 2018 in a round led by health care investor Triventures, taps AI algorithms to analyze large amounts of genetic data, runs the data points through a search engine, and generates personalized, actionable recommendations.

“AI has tremendous promise to transform the future of medicine,” Topol said. “With NVIDIA, we aim to establish a center of excellence for artificial intelligence in genomics and digital sensors, with the ultimate goal of developing best practices, tools and AI infrastructure for broader adoption and application by the biomedical research community.”

Today’s announcement comes after Nvidia unveiled a partnership with Canon Medical Systems to promote the use of AI techniques in medical and related research. Earlier this month, it embarked on a separate project with King’s College London to “accelerated discovery” of critical data strategies and speed deployment in clinics.