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Scientists team up to turn cells into tiny recording devices

The Allen Institute, the Chan Zuckerberg Initiative and the University of Washington have launched a collaboration called the Seattle Hub for Synthetic Biology, with the goal of using genetically modified cells to capture a DNA-based record showing how they change over time.

If the project works out as hoped, it could lead to a deeper understanding of the mechanisms behind cellular processes — including, for example, how tumors grow — and point to new methods for fighting disease and promoting healthy cell growth.

Over the next five years, the Seattle Hub for Synthetic Biology will receive $35 million from the Allen Institute, and another $35 million from the Chan Zuckerberg Initiative, founded by Meta CEO Mark Zuckerberg and his wife, Priscilla Chan.

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Asteroid-hunting algorithm passes a tricky test

A new technique for finding potentially hazardous asteroids before they find us has chalked up its first success.

In this case, the asteroid isn’t expected to threaten Earth anytime in the foreseeable future. But the fact that the technique — which uses a new computer algorithm called HelioLinc3D — actually works comes as a confidence boost as astronomers get set to step up the asteroid hunt with the Vera C. Rubin Observatory in Chile.

The University of Washington’s DiRAC Institute will play a leading role in analyzing the data from the Rubin Observatory, and HelioLinc3D is meant to make the job easier.

It’ll be another couple of years before the Rubin Observatory starts surveying the skies, but researchers put HelioLinc3D to the test by feeding it data from the NASA-funded Asteroid Terrestrial-impact Last Alert System, or ATLAS.

During the July 18 test run, the algorithm combined fragments of ATLAS data from four nights of observations to identify an asteroid that had been previously missed.

The asteroid, designated 2022 SF289 and described in a Minor Planet Electronic Circular, is thought to be about 600 feet wide. That’s wide enough to cause widespread destruction on Earth in the event of an impact. The good news is that projections of 2022 SF289’s orbital path show it staying 140,000 miles away from Earth at its closest. Nevertheless, the space rock fits NASA’s definition of a potentially hazardous asteroid because of its estimated size and the fact that it can come within 5 million miles of our planet.

UW researcher Ari Heinze, the principal developer of HelioLinc3D, said the algorithm’s success should carry over to the Rubin Observatory’s future database.

“By demonstrating the real-world effectiveness of the software that Rubin will use to look for thousands of yet-unknown potentially hazardous asteroids, the discovery of 2022 SF289 makes us all safer,” Heinze said in a news release.

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A new type of salt crystal could exist on Europa

A prime target in the search for extraterrestrial life is Europa, a moon of Jupiter that’s covered with a sheet of salty ice. But what kind of salt is there? Researchers say they’ve created a new kind of salt crystal that could fill the bill, and perhaps raise hopes for finding life under the ice.

This salt crystal is both exotic and common: It’s actually table salt — also known as sodium chloride, with the chemical formula NaCl — but bound up with water molecules to form a hydrate that doesn’t exist naturally on Earth.

Earthly sodium chloride hydrates are composed of one salt molecule linked by hydrogen bonds with two water molecules. In contrast, the hydrates created in the lab consist of two NaCl molecules to 17 water molecules, or one NaCl molecule to 13 water molecules. (The structure for a third type of “hyperhydrated hydrate” couldn’t be determined.)

That’s promising news for scientists who study Europa and other ice-covered worlds — including two other Jovian moons, Callisto and Ganymede; and the Saturnian moons Enceladus and Titan. Spectral observations indicate that Europa’s surface ice contains salts, including sodium chloride, but the observed levels of concentration don’t match up well with Earth’s run-of-the-mill NaCl hydrates.

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Are quantum computers for real? The answer is fuzzy

Do full-fledged quantum computers already exist, or will it be a decade before they come into being? Will they have to be the size of a football field? A data center cabinet? A microwave oven?

It seems as if the more you talk to computer scientists involved in the quantum computing quest, the less certain the answers become. It’s the flip side of the classic case of Schrödinger’s Cat, which is both dead and alive until you open the box: Quantum computers could be regarded as already alive, or not yet born.

For example, Microsoft is working on a full-stack quantum computer based on an exotic technology that’s expected to come to fruition on the time scale of a decade. Maryland-based IonQ has been making its quantum systems commercially available since 2019, and plans to start building next-gen quantum computers next year at a research and manufacturing facility in Bothell, Wash. Meanwhile, D-Wave Systems, which is headquartered near Vancouver, B.C., has been selling quantum hardware for more than a decade.

So are quantum computers ready for prime time? Researchers say that they’re not, and that the timeline for development is fuzzy. It all depends on how you define quantum computers and the kinds of problems you expect them to handle.

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Synthetic peptide molecules open the way for new drugs

Researchers at the University of Washington have discovered how to create peptide molecules that can slip through membranes to enter cells — and they’ve also created a company to take advantage of the discovery for drug development.

The findings, which were published today in the journal Cell, could eventually lead to new types of oral medications for health disorders ranging from COVID-19 to cancer.

“This new ability to design membrane-permeable peptides with high structural accuracy opens the door to a new class of medicines that combine the advantages of traditional small-molecule drugs and larger protein therapeutics,” senior study author David Baker, a biochemist at the University of Washington School of Medicine, said in a news release.

Small-molecule drugs — for example, aspirin — are small enough to slip through cell membranes to do their work. Protein therapeutics — for example, monoclonal antibodies — can target more complex ailments, but the protein molecules are typically too big to wedge their way through lipid-based cell walls.

Peptide drugs are made from the same building blocks as protein, and offer many of the advantages of protein-based drugs. They can bind protein targets in the body more precisely than small-molecule drugs, promising fewer side effects.

“We know that peptides can be excellent medicines, but a big problem is that they don’t get into cells,” said study lead author Gaurav Bhardwaj, an assistant professor of medicinal chemistry at the UW School of Pharmacy. “There are a lot of great drug targets inside our cells, and if we can get in there, that space opens up.”

The newly reported experiments used a couple of molecular design techniques to create types of peptide molecules that can get into cells more easily.

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How ‘Big Data’ can help scientists focus the search for E.T.

Could far-off aliens be sending out signals telling us they exist? If so, how would we know where to look? Researchers focusing on the search for extraterrestrial intelligence, or SETI, have laid out a new strategy for focusing their quest.

The strategy applies simple trigonometry to millions of data points, with the aim of seeking out potential interstellar beacons that are synchronized with hard-to-miss astronomical phenomena such as supernovae.

University of Washington astronomer James Davenport and his colleagues lay out the plan in a research paper submitted to the arXiv pre-print server this month. The idea is also the subject of a talk that Davenport’s giving this week at the Breakthrough Discuss conference in California.

“I think the technique is very straightforward. It’s dealing with triangles and ellipses, things that are like high-school geometry, which is sort of my speed,” Davenport told GeekWire half-jokingly. “I like simple shapes and things I can calculate easily.”

The pre-print paper, which hasn’t yet been published in a peer-reviewed journal, draws upon data from the European Space Agency’s Gaia sky-mapping mission. But Davenport said the technique is tailor-made for the terabytes of astronomical data that will be coming from the Vera C. Rubin Observatory nightly when it goes online, a couple of years from now.

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How using the cloud can rev up the search for asteroids

Astronomers have used a cloud-based technique pioneered at the University of Washington to identify and track asteroids in bunches of a hundred or more. Their achievement could dramatically accelerate the quest to find potentially threatening space rocks.

The technique makes use of an open-source analysis platform known as Asteroid Discovery Analysis and Mapping, or ADAM; plus a recently developed algorithm called Tracklet-less Heliocentric Orbit Recovery, or THOR. The THOR algorithm was created by Joachim Moeyens, an Asteroid Institute Fellow at UW; and Mario Juric, director of UW’s DiRAC Institute.

Teaming up ADAM and THOR may sound like a cross between a Bible story and a Marvel comic, but this dynamic duo’s superpower is strictly scientific: When ADAM runs the THOR algorithm, the software can determine the orbits of asteroids, even previously unidentified asteroids, by sifting through any large database of astronomical observations.

ADAM has been a long-term project for the Asteroid Institute, a program of the California-based B612 Foundation.

“Discovering and tracking asteroids is crucial to understanding our solar system, enabling development of space, and protecting our planet from asteroid impacts,” former NASA astronaut Ed Lu, the Asteroid Institute’s executive director, said today in a news release. “With THOR running on ADAM, any telescope with an archive can now become an asteroid search telescope.”

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Astronomers make an Earth Day plea to rein in satellites

Astronomers have issued an Earth Day call for environmentalism to be extended more fully to the final frontier, and for companies such as SpaceX and Amazon to dial back their plans for mega-constellations.

Among the authors of today’s commentary in the journal Nature Astronomy is Meredith Rawls of the University of Washington.

Astronomers have been raising concerns about the impact of having thousands of satellites in low Earth orbit for years, starting with SpaceX’s launch of the first operational satellites for its Starlink broadband constellation in 2019. Rawls and the other authors of today’s commentary stress that they aren’t just worried about interference with their astronomical observations, but are also concerned about the broader impact on appreciation of the night sky.

“We need all hands on deck to address the rapidly changing satellite situation if we can hope to co-create a future with dark and quiet skies for everyone,” Rawls, a research scientist with the Vera C. Rubin Observatory and UW’s DIRAC Institute, said in a news release.

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New centers will enlist software engineers for science

The University of Washington and three other universities have kicked off an effort to beef up the software engineering resources available to researchers, backed by a $40 million commitment from Schmidt Futures.

The philanthropic organization founded by former Google CEO Eric Schmidt and his wife, Wendy Schmidt, announced the establishment of the Virtual Institute for Scientific Software this week. The institute’s four inaugural centers will be housed at UW, the University of Cambridge, Georgia Tech and Johns Hopkins University.

Each of the centers will be awarded $2 million a year for the next five years to bring on software engineers and computational scientists who can help address the increasingly complex, data-centric challenges that face researchers today.

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Scientists trace the origin of tusks to Triassic creatures

Dental exams conducted on fossils from more than 200 million years ago suggest that the earliest true tusks were sported by breeds of weird-looking creatures known as dicynodonts.

The evidence, laid out today in the Proceedings of the Royal Society B, could shed light on how species ranging from elephants and walruses to warthogs and rabbit-like hyraxes came to have tusks.

“Tusks have evolved a number of times, which makes you wonder how — and why?” study co-author Christian Sidor, a biology professor at the University of Washington and a curator at UW’s Burke Museum of Natural History and Culture, said in a news release. “We now have good data on the anatomical changes that needed to happen for dicynodonts to evolve tusks. For other groups, like warthogs or walruses, the jury is still out.”

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