What’s New in Computing vs. COVID-19: Fast-Tracked Research, Susceptibility Study, Antibodies & More

By Oliver Peckham

April 6, 2020

Supercomputing, big data and artificial intelligence are crucial tools in the fight against the coronavirus pandemic. Around the world, researchers, corporations and governments are urgently devoting their computing resources to this global crisis. This column collects the biggest news about how advanced technologies are helping us fight back against COVID-19.


U.S. Department of Energy elaborates on the COVID-19 High-Performance Computing Consortium

In a briefing last week, the Department of Energy went into more detail regarding the new COVID-19 High-Performance Computing Consortium. In the briefing, the DOE referenced several projects that are already underway, highlighting how the division of labor for fighting COVID-19 is being spread across major supercomputing facilities. The DOE also launched a portal for submitting proposals to the consortium. To read more, visit the HPCwire article here.

Russian supercomputer spins up to identify COVID-19 treatment

The MVS-10P cluster at the Joint Supercomputer Center of the Russian Academy of Sciences has joined the fight against the coronavirus. The 771-peak teraflop supercomputer is being used by an international research team representing a dozen institutions and a half-dozen countries to study the telltale spike protein of the coronavirus. Specifically, the researchers are looking to design aptamers (molecules that bind to specific target molecules) that are more attractive to COVID-19 than the human ACE2 protein. To read more about this work, visit the HPCwire article here.

Bionano Genomics uses cloud HPC to run largest-yet study on COVID-19 disease susceptibility

Aiming to identify what makes individuals more or less susceptible to severe symptoms of COVID-19, Bionano Genomics has launched the largest study yet on genomic variations and active substances that affect resistance or sensitivity to the pandemic. A number of companies are supporting the study through the Tech Against Covid initiative, including Rescale, which is providing its high-performance computing cloud platform, and AWS. To read more, visit the press release here.

Lawrence Livermore applies supercomputing in quest to find COVID-19 antibodies

Lawrence Livermore National Laboratory (LLNL) highlighted its COVID-19 research, outlining an interdisciplinary team of researchers working to find antibodies. LLNL’s work began with the production of a 3D protein structure of COVID-19. That structure was then leveraged by another team at LLNL, which used a pair of HPC clusters to apply AI to antibody analysis simulations. Yet another group examined 26 million molecules on the Quartz cluster (delivering 3.25 peak petaflops) to see how they interacted with key proteins in COVID-19. To read more, visit the HPCwire article here.

NERSC and ESnet fast-track COVID-19 research, keep services running during the pandemic

The National Energy Research Scientific Computing Center (NERSC) and the Energy Sciences Network (ESnet) both operate under Lawrence Berkeley National Laboratory, which has spun down much of its activity to ensure social distancing – but NERSC and ESnet, both providing essential services, continue to support the nation’s scientists. NERSC, a member of the COVID-19 High Performance Computing Consortium, is working to prioritize COVID-19 research. To read more, visit the HPCwire article here.

PRACE awards its first COVID-19 project under fast-tracked proposal process

Last week, PRACE announced that it was fast-tracking COVID-19 proposals – and it’s already awarded its first fast-tracked project. The project, titled COVID-HP, is led by Jean-Philip Piquemal, a professor of theoretical chemistry at the Sorbonne. The research team will use 20,000,000 core hours on the Joliot-Curie Rome supercomputer (a 6.6-peak petaflop system hosted by GENCI) to research  inhibitors targeting COVID-19’s key proteins and certain nucleic acid sequences in its genome.

BSC combines bioinformatics, AI and supercomputing to study COVID-19

The Barcelona Supercomputing Center (BSC) is examining the development of COVID-19, studying how it evolved through different epidemics in order to understand how it passes from species to species. BSC is crunching the data – which includes genomic sequences of virus mutations and animal species – with its MareNostrum 4 supercomputer, which delivers 13.7 peak petaflops. BSC is also using MareNostrum 4 to examine possible treatments for COVID-19 by testing molecular docking. To read more, visit the press release here.

ImmunityBio leverages cloud supercomputing to target the spike protein

Immunotherapy company ImmunityBio is pitting cloud supercomputing against the coronavirus, running molecular dynamics simulations of the spike protein on a cloud HPC platform through Microsoft Azure. The simulations produced a detailed model of the spike protein’s solution structure, affording researchers a clearer pathway to producing a drug of treatment to debilitate COVID-19. The Azure cluster used to conduct the simulations contained over 1,250 Nvidia V100 GPUs. To read more, visit the press release here.

IBM’s World Community Grid delivers crowdsourced computing to fight COVID-19

Following in the footsteps of crowdsourced computing projects like [email protected] and [email protected], IBM has announced that its own crowdsourced computing platform, the World Community Grid, will be contributing to COVID-19 research. The project, called OpenPandemics – COVID-19, is designed and led by Scripps Research and promises to deliver “hundreds of millions of calculations” for COVID-19-related simulations. To read more, visit the press release here.

Indiana University fast-tracks COVID-19 research through Jetstream within XSEDE

IU has announced that Jetstream, its cloud-based, on-demand computing resource, is fast-tracking COVID-19-related projects within the Extreme Science and Engineering Discovery Environment (XSEDE). Jetstream is operating through the COVID-19 HPC Consortium. “Jetstream is proud to be part of the COVID-19 HPC Consortium, putting the power of our collective resources into the hands of scientists who can use them to respond to this unprecedented crisis,” said David Hancock, director of advanced cyberinfrastructure at IU and PI of Jetstream. To read more, visit the press release here.


Do you know about COVID-19 research that should be featured on this list? If so, send us an email at [email protected]. We look forward to hearing from you.

Subscribe to HPCwire's Weekly Update!

Be the most informed person in the room! Stay ahead of the tech trends with industy updates delivered to you every week!

Supercomputers Take to the Solar Winds

June 5, 2020

The whims of the solar winds – charged particles flowing from the Sun’s atmosphere – can interfere with systems that are now crucial for modern life, such as satellites and GPS services – but these winds can be d Read more…

By Oliver Peckham

HPC in O&G: Deep Sea Drilling – What Happens Now   

June 4, 2020

At the beginning of March I attended the Rice Oil & Gas HPC conference in Houston. That seems a long time ago now. It’s a great event where oil and gas specialists join with compute veterans and the discussion tell Read more…

By Rosemary Francis

NCSA Wades into Post-Blue Waters Era with Delta Supercomputer

June 3, 2020

NSF has awarded the National Center for Supercomputing Applications (NCSA) $10 million for its next supercomputer - named Delta – “which will kick-start NCSA’s next generation of supercomputers post-Blue Waters,” Read more…

By John Russell

Dell Integrates Bitfusion for vHPC, GPU ‘Pools’

June 3, 2020

Dell Technologies advanced its hardware virtualization strategy to AI workloads this week with the introduction of capabilities aimed at expanding access to GPU and HPC services via its EMC, VMware and recently acquired Read more…

By George Leopold

Supercomputers Streamline Prediction of Dangerous Arrhythmia

June 2, 2020

Heart arrhythmia can prove deadly, contributing to the hundreds of thousands of deaths from cardiac arrest in the U.S. every year. Unfortunately, many of those arrhythmia are induced as side effects from various medicati Read more…

By Staff report

AWS Solution Channel

Join AWS, Univa and Intel for This Informative Session!

Event Date: June 18, 2020

More enterprises than ever are turning to HPC cloud computing. Whether you’re just getting started, or more mature in your use of cloud, this HPC Cloud webinar is an excellent opportunity to gain valuable insights and knowledge to help accelerate your HPC cloud projects. Read more…

Indiana University to Deploy Jetstream 2 Cloud with AMD, Nvidia Technology

June 2, 2020

Indiana University has been awarded a $10 million NSF grant to build ‘Jetstream 2,’ a cloud computing system that will provide 8 aggregate petaflops of computing capability in support of data analysis and AI workload Read more…

By Tiffany Trader

NCSA Wades into Post-Blue Waters Era with Delta Supercomputer

June 3, 2020

NSF has awarded the National Center for Supercomputing Applications (NCSA) $10 million for its next supercomputer - named Delta – “which will kick-start NCS Read more…

By John Russell

Indiana University to Deploy Jetstream 2 Cloud with AMD, Nvidia Technology

June 2, 2020

Indiana University has been awarded a $10 million NSF grant to build ‘Jetstream 2,’ a cloud computing system that will provide 8 aggregate petaflops of comp Read more…

By Tiffany Trader

10nm, 7nm, 5nm…. Should the Chip Nanometer Metric Be Replaced?

June 1, 2020

The biggest cool factor in server chips is the nanometer. AMD beating Intel to a CPU built on a 7nm process node* – with 5nm and 3nm on the way – has been i Read more…

By Doug Black

COVID-19 HPC Consortium Expands to Europe, Reports on Research Projects

May 28, 2020

The COVID-19 HPC Consortium, a public-private effort delivering free access to HPC processing for scientists pursuing coronavirus research – some utilizing AI Read more…

By Doug Black

$100B Plan Submitted for Massive Remake and Expansion of NSF

May 27, 2020

Legislation to reshape, expand - and rename - the National Science Foundation has been submitted in both the U.S. House and Senate. The proposal, which seems to Read more…

By John Russell

IBM Boosts Deep Learning Accuracy on Memristive Chips

May 27, 2020

IBM researchers have taken another step towards making in-memory computing based on phase change (PCM) memory devices a reality. Papers in Nature and Frontiers Read more…

By John Russell

Hats Over Hearts: Remembering Rich Brueckner

May 26, 2020

HPCwire and all of the Tabor Communications family are saddened by last week’s passing of Rich Brueckner. He was the ever-optimistic man in the Red Hat presiding over the InsideHPC media portfolio for the past decade and a constant presence at HPC’s most important events. Read more…

Nvidia Q1 Earnings Top Expectations, Datacenter Revenue Breaks $1B

May 22, 2020

Nvidia’s seemingly endless roll continued in the first quarter with the company announcing blockbuster earnings that exceeded Wall Street expectations. Nvidia Read more…

By Doug Black

Supercomputer Modeling Tests How COVID-19 Spreads in Grocery Stores

April 8, 2020

In the COVID-19 era, many people are treating simple activities like getting gas or groceries with caution as they try to heed social distancing mandates and protect their own health. Still, significant uncertainty surrounds the relative risk of different activities, and conflicting information is prevalent. A team of Finnish researchers set out to address some of these uncertainties by... Read more…

By Oliver Peckham

[email protected] Turns Its Massive Crowdsourced Computer Network Against COVID-19

March 16, 2020

For gamers, fighting against a global crisis is usually pure fantasy – but now, it’s looking more like a reality. As supercomputers around the world spin up Read more…

By Oliver Peckham

[email protected] Rallies a Legion of Computers Against the Coronavirus

March 24, 2020

Last week, we highlighted [email protected], a massive, crowdsourced computer network that has turned its resources against the coronavirus pandemic sweeping the globe – but [email protected] isn’t the only game in town. The internet is buzzing with crowdsourced computing... Read more…

By Oliver Peckham

Global Supercomputing Is Mobilizing Against COVID-19

March 12, 2020

Tech has been taking some heavy losses from the coronavirus pandemic. Global supply chains have been disrupted, virtually every major tech conference taking place over the next few months has been canceled... Read more…

By Oliver Peckham

Supercomputer Simulations Reveal the Fate of the Neanderthals

May 25, 2020

For hundreds of thousands of years, neanderthals roamed the planet, eventually (almost 50,000 years ago) giving way to homo sapiens, which quickly became the do Read more…

By Oliver Peckham

DoE Expands on Role of COVID-19 Supercomputing Consortium

March 25, 2020

After announcing the launch of the COVID-19 High Performance Computing Consortium on Sunday, the Department of Energy yesterday provided more details on its sco Read more…

By John Russell

Steve Scott Lays Out HPE-Cray Blended Product Roadmap

March 11, 2020

Last week, the day before the El Capitan processor disclosures were made at HPE's new headquarters in San Jose, Steve Scott (CTO for HPC & AI at HPE, and former Cray CTO) was on-hand at the Rice Oil & Gas HPC conference in Houston. He was there to discuss the HPE-Cray transition and blended roadmap, as well as his favorite topic, Cray's eighth-gen networking technology, Slingshot. Read more…

By Tiffany Trader

Honeywell’s Big Bet on Trapped Ion Quantum Computing

April 7, 2020

Honeywell doesn’t spring to mind when thinking of quantum computing pioneers, but a decade ago the high-tech conglomerate better known for its control systems waded deliberately into the then calmer quantum computing (QC) waters. Fast forward to March when Honeywell announced plans to introduce an ion trap-based quantum computer whose ‘performance’ would... Read more…

By John Russell

Leading Solution Providers

SC 2019 Virtual Booth Video Tour

AMD
AMD
ASROCK RACK
ASROCK RACK
AWS
AWS
CEJN
CJEN
CRAY
CRAY
DDN
DDN
DELL EMC
DELL EMC
IBM
IBM
MELLANOX
MELLANOX
ONE STOP SYSTEMS
ONE STOP SYSTEMS
PANASAS
PANASAS
SIX NINES IT
SIX NINES IT
VERNE GLOBAL
VERNE GLOBAL
WEKAIO
WEKAIO

Contributors

Tech Conferences Are Being Canceled Due to Coronavirus

March 3, 2020

Several conferences scheduled to take place in the coming weeks, including Nvidia’s GPU Technology Conference (GTC) and the Strata Data + AI conference, have Read more…

By Alex Woodie

Exascale Watch: El Capitan Will Use AMD CPUs & GPUs to Reach 2 Exaflops

March 4, 2020

HPE and its collaborators reported today that El Capitan, the forthcoming exascale supercomputer to be sited at Lawrence Livermore National Laboratory and serve Read more…

By John Russell

Cray to Provide NOAA with Two AMD-Powered Supercomputers

February 24, 2020

The United States’ National Oceanic and Atmospheric Administration (NOAA) last week announced plans for a major refresh of its operational weather forecasting supercomputers, part of a 10-year, $505.2 million program, which will secure two HPE-Cray systems for NOAA’s National Weather Service to be fielded later this year and put into production in early 2022. Read more…

By Tiffany Trader

‘Billion Molecules Against COVID-19’ Challenge to Launch with Massive Supercomputing Support

April 22, 2020

Around the world, supercomputing centers have spun up and opened their doors for COVID-19 research in what may be the most unified supercomputing effort in hist Read more…

By Oliver Peckham

15 Slides on Programming Aurora and Exascale Systems

May 7, 2020

Sometime in 2021, Aurora, the first planned U.S. exascale system, is scheduled to be fired up at Argonne National Laboratory. Cray (now HPE) and Intel are the k Read more…

By John Russell

Summit Supercomputer is Already Making its Mark on Science

September 20, 2018

Summit, now the fastest supercomputer in the world, is quickly making its mark in science – five of the six finalists just announced for the prestigious 2018 Read more…

By John Russell

Australian Researchers Break All-Time Internet Speed Record

May 26, 2020

If you’ve been stuck at home for the last few months, you’ve probably become more attuned to the quality (or lack thereof) of your internet connection. Even Read more…

By Oliver Peckham

Nvidia’s Ampere A100 GPU: Up to 2.5X the HPC, 20X the AI

May 14, 2020

Nvidia's first Ampere-based graphics card, the A100 GPU, packs a whopping 54 billion transistors on 826mm2 of silicon, making it the world's largest seven-nanom Read more…

By Tiffany Trader

  • arrow
  • Click Here for More Headlines
  • arrow
Do NOT follow this link or you will be banned from the site!
Share This