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The Most Complete Simulation of a Cell Probes Life's Hidden Rules

WIRED

From the bizarre creatures in the depths of the oceans to the bacteria inside our bodies, all life on Earth consists of cells. But we have only a very rough idea of how even the simplest of those cells function. Now, as described recently in Cell, a team at the University of Illinois, Urbana-Champaign and their colleagues have created the most complete computer simulation ever of a living cell. With this digital model, biologists can burst through nature's constraints and accelerate their exploration of how the most basic unit of life ticks--and what would happen if it ticked differently. Original story reprinted with permission from Quanta Magazine, an editorially independent publication of the Simons Foundation whose mission is to enhance public understanding of science by covering research developments and trends in mathematics and the physical and life sciences.


Stanford University uses AI computing to cut DNA sequencing down to five hours

ZDNet

A Stanford University-led research team has set a new Guinness World Record for the fastest DNA sequencing technique using AI computing to accelerate workflow speed. The research, led by Dr Euan Ashley, professor of medicine, genetics and biomedical data science at Stanford School of Medicine, in collaboration with Nvidia, Oxford Nanopore Technologies, Google, Baylor College of Medicine, and the University of California, achieved sequencing in just five hours and two minutes. The study, published in The New England Journal of Medicine, involved speeding up every step of genome sequencing workflow by relying on new technology. This included using nanopore sequencing on Oxford Nanopore's PromethION Flow Cells to generate more than 100 gigabases of data per hour, and Nvidia GPUs on Google Cloud to speed up the base calling and variant calling processes. "We had to completely rethink and revamp our data pipelines and storage systems," Ashley said.


COVID-19 Spurs Scientific Revolution in Drug Discovery with AI

#artificialintelligence

Research across global academic and commercial labs to create a more efficient drug discovery process won recognition today with a special Gordon Bell Prize for work fighting COVID-19. A team of 27 researchers led by Rommie Amaro at the University of California at San Diego (UCSD) combined high performance computing (HPC) and AI to provide the clearest view to date of the coronavirus, winning the award. Their work began in late March when Amaro lit up Twitter with a picture of part of a simulated SARS-CoV-2 virus that looked like an upside-down Christmas tree. Seeing it, one remote researcher noticed how a protein seemed to reach like a crooked finger from behind a protective shield to touch a healthy human cell. "I said, 'holy crap, that's crazy'… only through sharing a simulation like this with the community could you see for the first time how the virus can only strike when it's in an open position," said Amaro, who leads a team of biochemists and computer experts at UCSD.


Everything announced at Nvidia's Fall GTC 2021: Omniverse Avatar, CuQuantum, Clara Holoscan and more

ZDNet

A synthetic camera image and corresponding ground-truth data showing instance segmentation generated by NVIDIA DRIVE Sim powered by Omniverse Replicator. Nvidia this week is showcasing how it plans to help enterprises jump into the virtual world, enabling life-like simulations and engaging avatars. Its plans for expanding Omniverse, its platform for extending workflows into the virtual sphere, were just part of several announcements delivered on Day One of Nvidia's fall Graphics Technology Conference (GTC) 2021, where the chipmaker is laying out its plans to advance accelerated computing. "A constant theme you'll see -- how Omniverse is used to simulate digital twins of warehouses, plants and factories, of physical and biological systems, the 5G edge, robots, self-driving cars, and even avatars," Nvidia CEO Jensen Huang said in prepared remarks. Underscoring the scale of Nvidia's ambitions for Omniverse, Huang said Nvidial will build a digital twin to simulate and predict climate change, E-2, or Earth Two. Along with Omniverse expansions, Nvidia announced a range of new Nvidia products and initiatives, spanning enterprise AI, cybersecurity and quantum computing, as well as advances in automotive and healthcare.


La Cañada wrestling falls to Millikan in CIF Division III dual-meet championships

Los Angeles Times

"I knew it was going to be tough," La Cañada coach Justin Luthey said. "On paper, we found a few ways we could've won. The matches were all close in the second and the third period, but they had some explosive moves that got our guys on their backs and then we got pinned.