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#437701 Robotics, AI, and Cloud Computing ...

IBM must be brimming with confidence about its new automated system for performing chemical synthesis because Big Blue just had twenty or so journalists demo the complex technology live in a virtual room.

IBM even had one of the journalists choose the molecule for the demo: a molecule in a potential Covid-19 treatment. And then we watched as the system synthesized and tested the molecule and provided its analysis in a PDF document that we all saw in the other journalist’s computer. It all worked; again, that’s confidence.

The complex system is based upon technology IBM started developing three years ago that uses artificial intelligence (AI) to predict chemical reactions. In August 2018, IBM made this service available via the Cloud and dubbed it RXN for Chemistry.

Now, the company has added a new wrinkle to its Cloud-based AI: robotics. This new and improved system is no longer named simply RXN for Chemistry, but RoboRXN for Chemistry.

All of the journalists assembled for this live demo of RoboRXN could watch as the robotic system executed various steps, such as moving the reactor to a small reagent and then moving the solvent to a small reagent. The robotic system carried out the entire set of procedures—completing the synthesis and analysis of the molecule—in eight steps.

Image: IBM Research

IBM RXN helps predict chemical reaction outcomes or design retrosynthesis in seconds.

In regular practice, a user will be able to suggest a combination of molecules they would like to test. The AI will pick up the order and task a robotic system to run the reactions necessary to produce and test the molecule. Users will be provided analyses of how well their molecules performed.

Back in March of this year, Silicon Valley-based startup Strateos demonstrated something similar that they had developed. That system also employed a robotic system to help researchers working from the Cloud create new chemical compounds. However, what distinguishes IBM’s system is its incorporation of a third element: the AI.

The backbone of IBM’s AI model is a machine learning translation method that treats chemistry like language translation. It translates the language of chemistry by converting reactants and reagents to products through the use of Statistical Machine Intelligence and Learning Engine (SMILE) representation to describe chemical entities.

IBM has also leveraged an automatic data driven strategy to ensure the quality of its data. Researchers there used millions of chemical reactions to teach the AI system chemistry, but contained within that data set were errors. So, how did IBM clean this so-called noisy data to eliminate the potential for bad models?

According to Alessandra Toniato, a researcher at IBM Zurichh, the team implemented what they dubbed the “forgetting experiment.”

Toniato explains that, in this approach, they asked the AI model how sure it was that the chemical examples it was given were examples of correct chemistry. When faced with this choice, the AI identified chemistry that it had “never learnt,” “forgotten six times,” or “never forgotten.” Those that were “never forgotten” were examples that were clean, and in this way they were able to clean the data that AI had been presented.

While the AI has always been part of the RXN for Chemistry, the robotics is the newest element. The main benefit that turning over the carrying out of the reactions to a robotic system is expected to yield is to free up chemists from doing the often tedious process of having to design a synthesis from scratch, says Matteo Manica, a research staff member in Cognitive Health Care and Life Sciences at IBM Research Zürich.

“In this demo, you could see how the system is synergistic between a human and AI,” said Manica. “Combine that with the fact that we can run all these processes with a robotic system 24/7 from anywhere in the world, and you can see how it will really help up to speed up the whole process.”

There appear to be two business models that IBM is pursuing with its latest technology. One is to deploy the entire system on the premises of a company. The other is to offer licenses to private Cloud installations.

Photo: Michael Buholzer

Teodoro Laino of IBM Research Europe.

“From a business perspective you can think of having a system like we demonstrated being replicated on the premise within companies or research groups that would like to have the technology available at their disposal,” says Teodoro Laino, distinguished RSM, manager at IBM Research Europe. “On the other hand, we are also pushing at bringing the entire system to a service level.”

Just as IBM is brimming with confidence about its new technology, the company also has grand aspirations for it.

Laino adds: “Our aim is to provide chemical services across the world, a sort of Amazon of chemistry, where instead of looking for chemistry already in stock, you are asking for chemistry on demand.”

< Back to IEEE COVID-19 Resources Continue reading

Posted in Human Robots

#437687 Video Friday: Bittle Is a Palm-Sized ...

Video Friday is your weekly selection of awesome robotics videos, collected by your Automaton bloggers. We’ll also be posting a weekly calendar of upcoming robotics events for the next few months; here's what we have so far (send us your events!):

ICRES 2020 – September 28-29, 2020 – Taipei, Taiwan
AUVSI EXPONENTIAL 2020 – October 5-8, 2020 – [Online]
IROS 2020 – October 25-29, 2020 – [Online]
CYBATHLON 2020 – November 13-14, 2020 – [Online]
ICSR 2020 – November 14-16, 2020 – Golden, Colo., USA
Let us know if you have suggestions for next week, and enjoy today's videos.

Rongzhong Li, who is responsible for the adorable robotic cat Nybble, has an updated and even more adorable quadruped that's more robust and agile but only costs around US $200 in kit form on Kickstarter.

Looks like the early bird options are sold out, but a full kit is a $225 pledge, for delivery in December.

[ Kickstarter ]

Thanks Rz!

I still maintain that Stickybot was one of the most elegantly designed robots ever.

[ Stanford ]

With the unpredictable health crisis of COVID-19 continuing to place high demands on hospitals, PAL Robotics have successfully completed testing of their delivery robots in Barcelona hospitals this summer. The TIAGo Delivery and TIAGo Conveyor robots were deployed in Hospital Municipal of Badalona and Hospital Clínic Barcelona following a winning proposal submitted to the European DIH-Hero project. Accerion sensors were integrated onto the TIAGo Delivery Robot and TIAGo Conveyor Robot for use in this project.

[ PAL Robotics ]

Energy Robotics, a leading developer of software solutions for mobile robots used in industrial applications, announced that its remote sensing and inspection solution for Boston Dynamics’s agile mobile robot Spot was successfully deployed at Merck’s thermal exhaust treatment plant at its headquarters in Darmstadt, Germany. Energy Robotics equipped Spot with sensor technology and remote supervision functions to support the inspection mission.

Combining Boston Dynamics’ intuitive controls, robotic intelligence and open interface with Energy Robotics’ control and autonomy software, user interface and encrypted cloud connection, Spot can be taught to autonomously perform a specific inspection round while being supervised remotely from anywhere with internet connectivity. Multiple cameras and industrial sensors enable the robot to find its way around while recording and transmitting information about the facility’s onsite equipment operations.

Spot reads the displays of gauges in its immediate vicinity and can also zoom in on distant objects using an externally-mounted optical zoom lens. In the thermal exhaust treatment facility, for instance, it monitors cooling water levels and notes whether condensation water has accumulated. Outside the facility, Spot monitors pipe bridges for anomalies.

Among the robot’s many abilities, it can detect defects of wires or the temperature of pump components using thermal imaging. The robot was put through its paces on a comprehensive course that tested its ability to handle special challenges such as climbing stairs, scaling embankments and walking over grating.

[ Energy Robotics ]

Thanks Stefan!

Boston Dynamics really should give Dr. Guero an Atlas just to see what he can do with it.

[ DrGuero ]

World's First Socially Distanced Birthday Party: Located in London, the robotic arm was piloted in real time to light the candles on the cake by the founder of Extend Robotics, Chang Liu, who was sat 50 miles away in Reading. Other team members in Manchester and Reading were also able to join in the celebration as the robot was used to accurately light the candles on the birthday cake.

[ Extend Robotics ]

The Robocon in-person competition was canceled this year, but check out Tokyo University's robots in action:

[ Robocon ]

Sphero has managed to pack an entire Sphero into a much smaller sphere.

[ Sphero ]

Squishy Robotics, a small business funded by the National Science Foundation (NSF), is developing mobile sensor robots for use in disaster rescue, remote monitoring, and space exploration. The shape-shifting, mobile, senor robots from UC-Berkeley spin-off Squishy Robotics can be dropped from airplanes or drones and can provide first responders with ground-based situational awareness during fires, hazardous materials (HazMat) release, and natural and man-made disasters.

[ Squishy Robotics ]

Meet Jasper, the small girl with big dreams to FLY. Created by UTS Animal Logic Academy in partnership with the Royal Australian Air Force to encourage girls to soar above the clouds. Jasper was created using a hybrid of traditional animation techniques and technology such as robotics and 3D printing. A KUKA QUANTEC robot is used during the film making to help the Australian Royal Airforce tell their story in a unique way. UTS adapted their High Accurate robot to film consistent paths, creating a video with physical sets and digital characters.

[ AU AF ]

Impressive what the Ghost Robotics V60 can do without any vision sensors on it.

[ Ghost Robotics ]

Is your job moving tiny amounts of liquid around? Would you rather be doing something else? ABB’s YuMi got you.

[ Yumi ]

For his PhD work at the Media Lab, Biomechatronics researcher Roman Stolyarov developed a terrain-adaptive control system for robotic leg prostheses. as a way to help people with amputations feel as able-bodied and mobile as possible, by allowing them to walk seamlessly regardless of the ground terrain.

[ MIT ]

This robot collects data on each cow when she enters to be milked. Milk samples and 3D photos can be taken to monitor the cow’s health status. The Ontario Dairy Research Centre in Elora, Ontario, is leading dairy innovation through education and collaboration. It is a state-of-the-art 175,000 square foot facility for discovery, learning and outreach. This centre is a partnership between the Agricultural Research Institute of Ontario, OMAFRA, the University of Guelph and the Ontario dairy industry.

[ University of Guleph ]

Australia has one of these now, should the rest of us panic?

[ Boeing ]

Daimler and Torc are developing Level 4 automated trucks for the real world. Here is a glimpse into our closed-course testing, routes on public highways in Virginia, and self-driving capabilities development. Our year of collaborating on the future of transportation culminated in the announcement of our new truck testing center in New Mexico.

[ Torc Robotics ] Continue reading

Posted in Human Robots

#437683 iRobot Remembers That Robots Are ...

iRobot has released several new robots over the last few years, including the i7 and s9 vacuums. Both of these models are very fancy and very capable, packed with innovative and useful features that we’ve been impressed by. They’re both also quite expensive—with dirt docks included, you’re looking at US $800 for the i7+, and a whopping $1,100 for the s9+. You can knock a couple hundred bucks off of those prices if you don’t want the docks, but still, these vacuums are absolutely luxury items.

If you just want something that’ll do some vacuuming so that you don’t have to, iRobot has recently announced a new Roomba option. The Roomba i3 is iRobot’s new low to midrange vacuum, starting at $400. It’s not nearly as smart as the i7 or the s9, but it can navigate (sort of) and make maps (sort of) and do some basic smart home integration. If that sounds like all you need, the i3 could be the robot vacuum for you.

iRobot calls the i3 “stylish,” and it does look pretty neat with that fabric top. Underneath, you get dual rubber primary brushes plus a side brush. There’s limited compatibility with the iRobot Home app and IFTTT, along with Alexa and Google Home. The i3 is also compatible with iRobot’s Clean Base, but that’ll cost you an extra $200, and iRobot refers to this bundle as the i3+.

The reason that the i3 only offers limited compatibility with iRobot’s app is that the i3 is missing the top-mounted camera that you’ll find in more expensive models. Instead, it relies on a downward-looking optical sensor to help it navigate, and it builds up a map as it’s cleaning by keeping track of when it bumps into obstacles and paying attention to internal sensors like a gyro and wheel odometers. The i3 can localize directly on its charging station or Clean Base (which have beacons on them that the robot can see if it’s close enough), which allows it to resume cleaning after emptying it’s bin or recharging. You’ll get a map of the area that the i3 has cleaned once it’s finished, but that map won’t persist between cleaning sessions, meaning that you can’t do things like set keep-out zones or identify specific rooms for the robot to clean. Many of the more useful features that iRobot’s app offers are based on persistent maps, and this is probably the biggest gap in functionality between the i3 and its more expensive siblings.

According to iRobot senior global product manager Sarah Wang, the kind of augmented dead-reckoning-based mapping that the i3 uses actually works really well: “Based on our internal and external testing, the performance is equivalent with our products that have cameras, like the Roomba 960,” she says. To get this level of performance, though, you do have to be careful, Wang adds. “If you kidnap i3, then it will be very confused, because it doesn’t have a reference to know where it is.” “Kidnapping” is a term that’s used often in robotics to refer to a situation in which an autonomous robot gets moved to an unmapped location, and in the context of a home robot, the best example of this is if you decide that you want your robot to vacuum a different room instead, so you pick it up and move it there.

iRobot used to make this easy by giving all of its robots carrying handles, but not anymore, because getting moved around makes things really difficult for any robot trying to keep track of where it is. While robots like the i7 can recover using their cameras to look for unique features that they recognize, the only permanent, unique landmark that the i3 can for sure identify is the beacon on its dock. What this means is that when it comes to the i3, even more than other Roomba models, the best strategy, is to just “let it do its thing,” says iRobot senior principal system engineer Landon Unninayar.

Photo: iRobot

The Roomba i3 is iRobot’s new low to midrange vacuum, starting at $400.

If you’re looking to spend a bit less than the $400 starting price of the i3, there are other options to be aware of as well. The Roomba 614, for example, does a totally decent job and costs $250. It’s scheduling isn’t very clever, it doesn’t make maps, and it won’t empty itself, but it will absolutely help keep your floors clean as long as you don’t mind being a little bit more hands-on. (And there’s also Neato’s D4, which offers basic persistent maps—and lasers!—for $330.)

The other thing to consider if you’re trying to decide between the i3 and a more expensive Roomba is that without the camera, the i3 likely won’t be able to take advantage of nearly as many of the future improvements that iRobot has said it’s working on. Spending more money on a robot with additional sensors isn’t just buying what it can do now, but also investing in what it may be able to do later on, with its more sophisticated localization and ability to recognize objects. iRobot has promised major app updates every six months, and our guess is that most of the cool new stuff is going to show in the i7 and s9. So, if your top priority is just cleaner floors, the i3 is a solid choice. But if you want a part of what iRobot is working on next, the i3 might end up holding you back. Continue reading

Posted in Human Robots

#437673 Can AI and Automation Deliver a COVID-19 ...

Illustration: Marysia Machulska

Within moments of meeting each other at a conference last year, Nathan Collins and Yann Gaston-Mathé began devising a plan to work together. Gaston-Mathé runs a startup that applies automated software to the design of new drug candidates. Collins leads a team that uses an automated chemistry platform to synthesize new drug candidates.

“There was an obvious synergy between their technology and ours,” recalls Gaston-Mathé, CEO and cofounder of Paris-based Iktos.

In late 2019, the pair launched a project to create a brand-new antiviral drug that would block a specific protein exploited by influenza viruses. Then the COVID-19 pandemic erupted across the world stage, and Gaston-Mathé and Collins learned that the viral culprit, SARS-CoV-2, relied on a protein that was 97 percent similar to their influenza protein. The partners pivoted.

Their companies are just two of hundreds of biotech firms eager to overhaul the drug-discovery process, often with the aid of artificial intelligence (AI) tools. The first set of antiviral drugs to treat COVID-19 will likely come from sifting through existing drugs. Remdesivir, for example, was originally developed to treat Ebola, and it has been shown to speed the recovery of hospitalized COVID-19 patients. But a drug made for one condition often has side effects and limited potency when applied to another. If researchers can produce an ­antiviral that specifically targets SARS-CoV-2, the drug would likely be safer and more effective than a repurposed drug.

There’s one big problem: Traditional drug discovery is far too slow to react to a pandemic. Designing a drug from scratch typically takes three to five years—and that’s before human clinical trials. “Our goal, with the combination of AI and automation, is to reduce that down to six months or less,” says Collins, who is chief strategy officer at SRI Biosciences, a division of the Silicon Valley research nonprofit SRI International. “We want to get this to be very, very fast.”

That sentiment is shared by small biotech firms and big pharmaceutical companies alike, many of which are now ramping up automated technologies backed by supercomputing power to predict, design, and test new antivirals—for this pandemic as well as the next—with unprecedented speed and scope.

“The entire industry is embracing these tools,” says Kara Carter, president of the International Society for Antiviral Research and executive vice president of infectious disease at Evotec, a drug-discovery company in Hamburg. “Not only do we need [new antivirals] to treat the SARS-CoV-2 infection in the population, which is probably here to stay, but we’ll also need them to treat future agents that arrive.”

There are currentlyabout 200 known viruses that infect humans. Although viruses represent less than 14 percent of all known human pathogens, they make up two-thirds of all new human pathogens discovered since 1980.

Antiviral drugs are fundamentally different from vaccines, which teach a person’s immune system to mount a defense against a viral invader, and antibody treatments, which enhance the body’s immune response. By contrast, anti­virals are chemical compounds that directly block a virus after a person has become infected. They do this by binding to specific proteins and preventing them from functioning, so that the virus cannot copy itself or enter or exit a cell.

The SARS-CoV-2 virus has an estimated 25 to 29 proteins, but not all of them are suitable drug targets. Researchers are investigating, among other targets, the virus’s exterior spike protein, which binds to a receptor on a human cell; two scissorlike enzymes, called proteases, that cut up long strings of viral proteins into functional pieces inside the cell; and a polymerase complex that makes the cell churn out copies of the virus’s genetic material, in the form of single-stranded RNA.

But it’s not enough for a drug candidate to simply attach to a target protein. Chemists also consider how tightly the compound binds to its target, whether it binds to other things as well, how quickly it metabolizes in the body, and so on. A drug candidate may have 10 to 20 such objectives. “Very often those objectives can appear to be anticorrelated or contradictory with each other,” says Gaston-Mathé.

Compared with antibiotics, antiviral drug discovery has proceeded at a snail’s pace. Scientists advanced from isolating the first antibacterial molecules in 1910 to developing an arsenal of powerful antibiotics by 1944. By contrast, it took until 1951 for researchers to be able to routinely grow large amounts of virus particles in cells in a dish, a breakthrough that earned the inventors a Nobel Prize in Medicine in 1954.

And the lag between the discovery of a virus and the creation of a treatment can be heartbreaking. According to the World Health Organization, 71 million people worldwide have chronic hepatitis C, a major cause of liver cancer. The virus that causes the infection was discovered in 1989, but effective antiviral drugs didn’t hit the market until 2014.

While many antibiotics work on a range of microbes, most antivirals are highly specific to a single virus—what those in the business call “one bug, one drug.” It takes a detailed understanding of a virus to develop an antiviral against it, says Che Colpitts, a virologist at Queen’s University, in Canada, who works on antivirals against RNA viruses. “When a new virus emerges, like SARS-CoV-2, we’re at a big disadvantage.”

Making drugs to stop viruses is hard for three main reasons. First, viruses are the Spartans of the pathogen world: They’re frugal, brutal, and expert at evading the human immune system. About 20 to 250 nanometers in diameter, viruses rely on just a few parts to operate, hijacking host cells to reproduce and often destroying those cells upon departure. They employ tricks to camouflage their presence from the host’s immune system, including preventing infected cells from sending out molecular distress beacons. “Viruses are really small, so they only have a few components, so there’s not that many drug targets available to start with,” says Colpitts.

Second, viruses replicate quickly, typically doubling in number in hours or days. This constant copying of their genetic material enables viruses to evolve quickly, producing mutations able to sidestep drug effects. The virus that causes AIDS soon develops resistance when exposed to a single drug. That’s why a cocktail of antiviral drugs is used to treat HIV infection.

Finally, unlike bacteria, which can exist independently outside human cells, viruses invade human cells to propagate, so any drug designed to eliminate a virus needs to spare the host cell. A drug that fails to distinguish between a virus and a cell can cause serious side effects. “Discriminating between the two is really quite difficult,” says Evotec’s Carter, who has worked in antiviral drug discovery for over three decades.

And then there’s the money barrier. Developing antivirals is rarely profitable. Health-policy researchers at the London School of Economics recently estimated that the average cost of developing a new drug is US $1 billion, and up to $2.8 billion for cancer and other specialty drugs. Because antivirals are usually taken for only short periods of time or during short outbreaks of disease, companies rarely recoup what they spent developing the drug, much less turn a profit, says Carter.

To change the status quo, drug discovery needs fresh approaches that leverage new technologies, rather than incremental improvements, says Christian Tidona, managing director of BioMed X, an independent research institute in Heidelberg, Germany. “We need breakthroughs.”

Putting Drug Development on Autopilot
Earlier this year, SRI Biosciences and Iktos began collaborating on a way to use artificial intelligence and automated chemistry to rapidly identify new drugs to target the COVID-19 virus. Within four months, they had designed and synthesized a first round of antiviral candidates. Here’s how they’re doing it.

1/5

STEP 1: Iktos’s AI platform uses deep-learning algorithms in an iterative process to come up with new molecular structures likely to bind to and disable a specific coronavirus protein. Illustrations: Chris Philpot

2/5

STEP 2: SRI Biosciences’s SynFini system is a three-part automated chemistry suite for producing new compounds. Starting with a target compound from Iktos, SynRoute uses machine learning to analyze and optimize routes for creating that compound, with results in about 10 seconds. It prioritizes routes based on cost, likelihood of success, and ease of implementation.

3/5

STEP 3: SynJet, an automated inkjet printer platform, tests the routes by printing out tiny quantities of chemical ingredients to see how they react. If the right compound is produced, the platform tests it.

4/5

STEP 4: AutoSyn, an automated tabletop chemical plant, synthesizes milligrams to grams of the desired compound for further testing. Computer-selected “maps” dictate paths through the plant’s modular components.

5/5

STEP 5: The most promising compounds are tested against live virus samples.

Previous
Next

Iktos’s AI platform was created by a medicinal chemist and an AI expert. To tackle SARS-CoV-2, the company used generative models—deep-learning algorithms that generate new data—to “imagine” molecular structures with a good chance of disabling a key coronavirus protein.

For a new drug target, the software proposes and evaluates roughly 1 million compounds, says Gaston-Mathé. It’s an iterative process: At each step, the system generates 100 virtual compounds, which are tested in silico with predictive models to see how closely they meet the objectives. The test results are then used to design the next batch of compounds. “It’s like we have a very, very fast chemist who is designing compounds, testing compounds, getting back the data, then designing another batch of compounds,” he says.

The computer isn’t as smart as a human chemist, Gaston-Mathé notes, but it’s much faster, so it can explore far more of what people in the field call “chemical space”—the set of all possible organic compounds. Unexplored chemical space is huge: Biochemists estimate that there are at least 1063 possible druglike molecules, and that 99.9 percent of all possible small molecules or compounds have never been synthesized.

Still, designing a chemical compound isn’t the hardest part of creating a new drug. After a drug candidate is designed, it must be synthesized, and the highly manual process for synthesizing a new chemical hasn’t changed much in 200 years. It can take days to plan a synthesis process and then months to years to optimize it for manufacture.

That’s why Gaston-Mathé was eager to send Iktos’s AI-generated designs to Collins’s team at SRI Biosciences. With $13.8 million from the Defense Advanced Research Projects Agency, SRI Biosciences spent the last four years automating the synthesis process. The company’s automated suite of three technologies, called SynFini, can produce new chemical compounds in just hours or days, says Collins.

First, machine-learning software devises possible routes for making a desired molecule. Next, an inkjet printer platform tests the routes by printing out and mixing tiny quantities of chemical ingredients to see how they react with one another; if the right compound is produced, the platform runs tests on it. Finally, a tabletop chemical plant synthesizes milligrams to grams of the desired compound.

Less than four months after Iktos and SRI Biosciences announced their collaboration, they had designed and synthesized a first round of antiviral candidates for SARS-CoV-2. Now they’re testing how well the compounds work on actual samples of the virus.

Out of 10
63 possible druglike molecules, 99.9 percent have never been synthesized.

Theirs isn’t the only collaborationapplying new tools to drug discovery. In late March, Alex Zhavoronkov, CEO of Hong Kong–based Insilico Medicine, came across a YouTube video showing three virtual-reality avatars positioning colorful, sticklike fragments in the side of a bulbous blue protein. The three researchers were using VR to explore how compounds might bind to a SARS-CoV-2 enzyme. Zhavoronkov contacted the startup that created the simulation—Nanome, in San Diego—and invited it to examine Insilico’s ­AI-generated molecules in virtual reality.

Insilico runs an AI platform that uses biological data to train deep-learning algorithms, then uses those algorithms to identify molecules with druglike features that will likely bind to a protein target. A four-day training sprint in late January yielded 100 molecules that appear to bind to an important SARS-CoV-2 protease. The company recently began synthesizing some of those molecules for laboratory testing.

Nanome’s VR software, meanwhile, allows researchers to import a molecular structure, then view and manipulate it on the scale of individual atoms. Like human chess players who use computer programs to explore potential moves, chemists can use VR to predict how to make molecules more druglike, says Nanome CEO Steve McCloskey. “The tighter the interface between the human and the computer, the more information goes both ways,” he says.

Zhavoronkov sent data about several of Insilico’s compounds to Nanome, which re-created them in VR. Nanome’s chemist demonstrated chemical tweaks to potentially improve each compound. “It was a very good experience,” says Zhavoronkov.

Meanwhile, in March, Takeda Pharmaceutical Co., of Japan, invited Schrödinger, a New York–based company that develops chemical-simulation software, to join an alliance working on antivirals. Schrödinger’s AI focuses on the physics of how proteins interact with small molecules and one another.

The software sifts through billions of molecules per week to predict a compound’s properties, and it optimizes for multiple desired properties simultaneously, says Karen Akinsanya, chief biomedical scientist and head of discovery R&D at Schrödinger. “There’s a huge sense of urgency here to come up with a potent molecule, but also to come up with molecules that are going to be well tolerated” by the body, she says. Drug developers are seeking compounds that can be broadly used and easily administered, such as an oral drug rather than an intravenous drug, she adds.

Schrödinger evaluated four protein targets and performed virtual screens for two of them, a computing-intensive process. In June, Google Cloud donated the equivalent of 16 million hours of Nvidia GPU time for the company’s calculations. Next, the alliance’s drug companies will synthesize and test the most promising compounds identified by the virtual screens.

Other companies, including Amazon Web Services, IBM, and Intel, as well as several U.S. national labs are also donating time and resources to the Covid-19 High Performance Computing Consortium. The consortium is supporting 87 projects, which now have access to 6.8 million CPU cores, 50,000 GPUs, and 600 petaflops of computational resources.

While advanced technologies could transform early drug discovery, any new drug candidate still has a long road after that. It must be tested in animals, manufactured in large batches for clinical trials, then tested in a series of trials that, for antivirals, lasts an average of seven years.

In May, the BioMed X Institute in Germany launched a five-year project to build a Rapid Antiviral Response Platform, which would speed drug discovery all the way through manufacturing for clinical trials. The €40 million ($47 million) project, backed by drug companies, will identify ­outside-the-box proposals from young scientists, then provide space and funding to develop their ideas.

“We’ll focus on technologies that allow us to go from identification of a new virus to 10,000 doses of a novel potential therapeutic ready for trials in less than six months,” says BioMed X’s Tidona, who leads the project.

While a vaccine will likely arrive long before a bespoke antiviral does, experts expect COVID-19 to be with us for a long time, so the effort to develop a direct-acting, potent antiviral continues. Plus, having new antivirals—and tools to rapidly create more—can only help us prepare for the next pandemic, whether it comes next month or in another 102 years.

“We’ve got to start thinking differently about how to be more responsive to these kinds of threats,” says Collins. “It’s pushing us out of our comfort zones.”

This article appears in the October 2020 print issue as “Automating Antivirals.” Continue reading

Posted in Human Robots

#437671 Video Friday: Researchers 3D Print ...

Video Friday is your weekly selection of awesome robotics videos, collected by your Automaton bloggers. We’ll also be posting a weekly calendar of upcoming robotics events for the next few months; here’s what we have so far (send us your events!):

ICRES 2020 – September 28-29, 2020 – Taipei, Taiwan
AUVSI EXPONENTIAL 2020 – October 5-8, 2020 – [Online]
IROS 2020 – October 25-29, 2020 – [Online]
ROS World 2020 – November 12, 2020 – [Online]
CYBATHLON 2020 – November 13-14, 2020 – [Online]
ICSR 2020 – November 14-16, 2020 – Golden, Colo., USA
Let us know if you have suggestions for next week, and enjoy today’s videos.

The Giant Gundam in Yokohama is actually way cooler than I thought it was going to be.

[ Gundam Factory ] via [ YouTube ]

A new 3D-printing method will make it easier to manufacture and control the shape of soft robots, artificial muscles and wearable devices. Researchers at UC San Diego show that by controlling the printing temperature of liquid crystal elastomer, or LCE, they can control the material’s degree of stiffness and ability to contract—also known as degree of actuation. What’s more, they are able to change the stiffness of different areas in the same material by exposing it to heat.

[ UCSD ]

Thanks Ioana!

This is the first successful reactive stepping test on our new torque-controlled biped robot named Bolt. The robot has 3 active degrees of freedom per leg and one passive joint in ankle. Since there is no active joint in ankle, the robot only relies on step location and timing adaptation to stabilize its motion. Not only can the robot perform stepping without active ankles, but it is also capable of rejecting external disturbances as we showed in this video.

[ ODRI ]

The curling robot “Curly” is the first AI-based robot to demonstrate competitive curling skills in an icy real environment with its high uncertainties. Scientists from seven different Korean research institutions including Prof. Klaus-Robert Müller, head of the machine-learning group at TU Berlin and guest professor at Korea University, have developed an AI-based curling robot.

[ TU Berlin ]

MoonRanger, a small robotic rover being developed by Carnegie Mellon University and its spinoff Astrobotic, has completed its preliminary design review in preparation for a 2022 mission to search for signs of water at the moon’s south pole. Red Whittaker explains why the new MoonRanger Lunar Explorer design is innovative and different from prior planetary rovers.

[ CMU ]

Cobalt’s security robot can now navigate unmodified elevators, which is an impressive feat.

Also, EXTERMINATE!

[ Cobalt ]

OrionStar, the robotics company invested in by Cheetah Mobile, announced the Robotic Coffee Master. Incorporating 3,000 hours of AI learning, 30,000 hours of robotic arm testing and machine vision training, the Robotic Coffee Master can perform complex brewing techniques, such as curves and spirals, with millimeter-level stability and accuracy (reset error ≤ 0.1mm).

[ Cheetah Mobile ]

DARPA OFFensive Swarm-Enabled Tactics (OFFSET) researchers recently tested swarms of autonomous air and ground vehicles at the Leschi Town Combined Arms Collective Training Facility (CACTF), located at Joint Base Lewis-McChord (JBLM) in Washington. The Leschi Town field experiment is the fourth of six planned experiments for the OFFSET program, which seeks to develop large-scale teams of collaborative autonomous systems capable of supporting ground forces operating in urban environments.

[ DARPA ]

Here are some highlights from Team Explorer’s SubT Urban competition back in February.

[ Team Explorer ]

Researchers with the Skoltech Intelligent Space Robotics Laboratory have developed a system that allows easy interaction with a micro-quadcopter with LEDs that can be used for light-painting. The researchers used a 92x92x29 mm Crazyflie 2.0 quadrotor that weighs just 27 grams, equipped with a light reflector and an array of controllable RGB LEDs. The control system consists of a glove equipped with an inertial measurement unit (IMU; an electronic device that tracks the movement of a user’s hand), and a base station that runs a machine learning algorithm.

[ Skoltech ]

“DeKonBot” is the prototype of a cleaning and disinfection robot for potentially contaminated surfaces in buildings such as door handles, light switches or elevator buttons. While other cleaning robots often spray the cleaning agents over a large area, DeKonBot autonomously identifies the surface to be cleaned.

[ Fraunhofer IPA ]

On Oct. 20, the OSIRIS-REx mission will perform the first attempt of its Touch-And-Go (TAG) sample collection event. Not only will the spacecraft navigate to the surface using innovative navigation techniques, but it could also collect the largest sample since the Apollo missions.

[ NASA ]

With all the robotics research that seems to happen in places where snow is more of an occasional novelty or annoyance, it’s good to see NORLAB taking things more seriously

[ NORLAB ]

Telexistence’s Model-T robot works very slowly, but very safely, restocking shelves.

[ Telexistence ] via [ YouTube ]

Roboy 3.0 will be unveiled next month!

[ Roboy ]

KUKA ready2_educate is your training cell for hands-on education in robotics. It is especially aimed at schools, universities and company training facilities. The training cell is a complete starter package and your perfect partner for entry into robotics.

[ KUKA ]

A UPenn GRASP Lab Special Seminar on Data Driven Perception for Autonomy, presented by Dapo Afolabi from UC Berkeley.

Perception systems form a crucial part of autonomous and artificial intelligence systems since they convert data about the relationship between an autonomous system and its environment into meaningful information. Perception systems can be difficult to build since they may involve modeling complex physical systems or other autonomous agents. In such scenarios, data driven models may be used to augment physics based models for perception. In this talk, I will present work making use of data driven models for perception tasks, highlighting the benefit of such approaches for autonomous systems.

[ GRASP Lab ]

A Maryland Robotics Center Special Robotics Seminar on Underwater Autonomy, presented by Ioannis Rekleitis from the University of South Carolina.

This talk presents an overview of algorithmic problems related to marine robotics, with a particular focus on increasing the autonomy of robotic systems in challenging environments. I will talk about vision-based state estimation and mapping of underwater caves. An application of monitoring coral reefs is going to be discussed. I will also talk about several vehicles used at the University of South Carolina such as drifters, underwater, and surface vehicles. In addition, a short overview of the current projects will be discussed. The work that I will present has a strong algorithmic flavour, while it is validated in real hardware. Experimental results from several testing campaigns will be presented.

[ MRC ]

This week’s CMU RI Seminar comes from Scott Niekum at UT Austin, on Scaling Probabilistically Safe Learning to Robotics.

Before learning robots can be deployed in the real world, it is critical that probabilistic guarantees can be made about the safety and performance of such systems. This talk focuses on new developments in three key areas for scaling safe learning to robotics: (1) a theory of safe imitation learning; (2) scalable reward inference in the absence of models; (3) efficient off-policy policy evaluation. The proposed algorithms offer a blend of safety and practicality, making a significant step towards safe robot learning with modest amounts of real-world data.

[ CMU RI ] Continue reading

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