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Institute for Protein Design Profile
Institute for Protein Design

@UWproteindesign

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We create proteins that solve challenges in medicine, technology & sustainability // Co-developers of @Foldit // @UWMedicine |

Seattle, WA
Joined September 2013
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@UWproteindesign
Institute for Protein Design
9 days
Our latest AI tools for protein modeling & design were highlighted on the cover of @ScienceMagazine . Read the open-access paper: Use these tools for free: RoseTTAFold All-Atom: RFdiffusion All-Atom:
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@UWproteindesign
Institute for Protein Design
1 year
Today we're making RF Diffusion, our guided diffusion model for protein design with potential applications in medicine, vaccines & advanced materials, free to use. The software has proven much faster and more capable than prior protein design tools.
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@UWproteindesign
Institute for Protein Design
1 year
01. Today we report the computational design of highly efficient enzymes. Lab testing confirms that these novel luciferases can recognize specific synthetic substrates and efficiently catalyze the emission of light.
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@UWproteindesign
Institute for Protein Design
2 years
(1/8) Today we share the structures of protein complexes from nearly every core process in eukaryotic biology — from DNA repair to membrane trafficking. This work builds on breakthroughs in coevolution & deep learning ( #Alphafold , #RoseTTAFold ).
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@UWproteindesign
Institute for Protein Design
1 year
Generative AI for protein design is now one click away. We've launched a new platform that puts powerful tools behind a simple web interface, making #proteindesign accessible to anyone. Try it here ➡️ Learn more on YouTube ➡️
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@UWproteindesign
Institute for Protein Design
2 years
Design of protein binding proteins from target structure alone | @Nature Our approach now enables targeted design of binders to sites of interest on a wide variety of proteins for therapeutic and diagnostic applications. #proteindesign
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@UWproteindesign
Institute for Protein Design
11 months
Congrats to David Baker who, together with Demis Hassabis & John Jumper, just received the Frontier of Knowledge Award in Biology & Biomedicine. "[Our progress is] the result of many hundreds of brilliant minds all working together. This award is as much theirs as it is mine."
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@UWproteindesign
Institute for Protein Design
1 year
Today we report the design of proteins that bind to disordered targets. This design strategy focuses on features common to the peptide backbone and can be used to generate binders for disordered proteins.
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@UWproteindesign
Institute for Protein Design
9 months
Scientists in the Baker Lab have designed new proteins that change shape upon binding a target molecule. This research opens the door to new applications in drug delivery, environmental sensing & more. @FloPraetorius , @definitelyphil
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@UWproteindesign
Institute for Protein Design
3 years
“This really is a big deal” — David Baker on today's #AlphaFold news. From our team to @DeepMind : Congratulations! You have electrified this important field. We look forward to what can be accomplished in the coming years.
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@UWproteindesign
Institute for Protein Design
4 years
Congratulations to our director, David Baker, on winning a Breakthrough Prize in Life Sciences!
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@UWproteindesign
Institute for Protein Design
1 year
Today we report the use of reinforcement learning, a strategy used to solve games like chess and Go, to a challenge in protein design. This milestone in using #AI for science may enable more effective cancer treatments & new biodegradable textiles.
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@UWproteindesign
Institute for Protein Design
3 years
Rosetta Commons is pleased to once again offer (paid) undergraduate internships and postbac fellowships in biomolecular structure prediction and design! Learn about #deeplearning breakthroughs and how to apply them to create new therapies, vaccines & biotechnologies. 1/3
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@UWproteindesign
Institute for Protein Design
2 years
We are honored to see our work on protein structure prediction recognized as the 2021 Breakthrough of the Year. We also applaud @DeepMind for invigorating the field and contributing so much to open science. All areas of computational and molecular biology will be transformed.
@ScienceMagazine
Science Magazine
2 years
AI algorithms can now churn out predictions for the 3D shapes of proteins with a precision matching that of painstaking laboratory techniques. The programs, and the blizzard of protein structures they have revealed, are Science’s 2021 #BOTY .
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@UWproteindesign
Institute for Protein Design
2 years
SKYCovione, a COVID-19 vaccine developed by @KingLabIPD & @veeslerlab , has just won full approval abroad!🇰🇷This protein-based vaccine outperforms Oxford/AstraZeneca's and does not require freezing. It is our first designed protein medicine. Learn more:
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@UWproteindesign
Institute for Protein Design
2 years
Just as convincing images of cats can be generated using artificial intelligence, new proteins can now be made using similar tools. In a new report in @Nature , we describe a neural network approach for “hallucinating” proteins with new, stable structures.
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@UWproteindesign
Institute for Protein Design
3 years
how it started how it's going
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@UWproteindesign
Institute for Protein Design
3 years
David Baker will present the @MRC_LMB 2021 Max Perutz Lecture, titled ‘The coming of age of de novo protein design’ at 8:00am (Pacific) on Tuesday, April 27. Attendance via Zoom is free & open to all.
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@UWproteindesign
Institute for Protein Design
3 years
Today we report the design of new proteins that cluster antibodies into dense nanoparticles. In lab testing, such clustered Abs neutralize SARS-CoV-2 pseudovirus, enhance cell signaling, and promote T cell growth more effectively than free antibodies.
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@UWproteindesign
Institute for Protein Design
5 years
This is a historic day for protein design: New computer-generated proteins fight #cancer with fewer side effects. #immunotherapy #proteindesign #neoleukin @nature
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@UWproteindesign
Institute for Protein Design
1 year
David Baker, together with Demis Hassabis & John Jumper of @DeepMind , has received the Frontiers of Knowledge Award from @FundacionBBVA for "contributions to the use of A.I. for the accurate prediction of the 3D structure of proteins."
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@UWproteindesign
Institute for Protein Design
1 month
Register today for this free @SynBioBeta event:
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@UWproteindesign
Institute for Protein Design
3 years
#RoseTTAFold : Accurate prediction of protein structures and interactions using a three-track neural network. By @minkbaek et al, @ScienceMagazine
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@UWproteindesign
Institute for Protein Design
2 years
#ProteinMPNN , which is now available free on the open-source software repository GitHub, will give researchers the tools to make unlimited new designs. “The challenge, of course, is what are you going to design?” GitHub:
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@UWproteindesign
Institute for Protein Design
2 years
Today we report the design of protein assemblies made from modular parts. These complexes — which adopt linear, branching, or closed-loop architectures — contain up to 6 unique proteins, each of which remains soluble in the absence of binding partners.
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@UWproteindesign
Institute for Protein Design
1 year
The Baker Lab has a new #openaccess paper in @NatureComms showing that dramatic improvements can be achieved when deep learning software is used to design protein-binding proteins. Full paper ➡️ Short summary ⬇️
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@UWproteindesign
Institute for Protein Design
2 years
Accurate de novo design of membrane-traversing macrocycles | @CellCellPress
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@UWproteindesign
Institute for Protein Design
1 year
Ready to learn about protein design? Our beginner's guide breaks down this complex field into easy-to-understand concepts. Discover the potential of proteins to transform our world:
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@UWproteindesign
Institute for Protein Design
3 years
. @ScienceMagazine has published a beautiful profile of our efforts to design a vaccine that protects against many coronaviruses at once. A close collaboration between NIAID, @KingLabIPD , @veeslerlab , @WardLab1 , & others. The dream vaccine:
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@UWproteindesign
Institute for Protein Design
1 year
David Baker will soon present at the NIH Director's Wednesday Afternoon Lecture Series. His talk is titled The Coming of Age of De Novo Protein Design Wednesday, Dec 14, 2:00pm ET Watch live at
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@UWproteindesign
Institute for Protein Design
1 year
"De novo protein design has reached an inflection point, researchers say. AI-powered protein design is becoming very real and very usable, thanks to technological advances in the development of algorithms and the hardware that runs them."
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@UWproteindesign
Institute for Protein Design
2 years
Today we report new #deeplearning approaches for functional #proteindesign . We use these to generate immunogens, receptor traps, metalloproteins, enzymes, and binder proteins. We validate the designs using in silico and lab tests.
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@UWproteindesign
Institute for Protein Design
1 year
Generative AI for protein design is now one click away. We've launched a new platform that puts powerful tools behind a simple web interface, making #proteindesign accessible to everyone. Full video ➡️ Try it here ➡️
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@UWproteindesign
Institute for Protein Design
3 years
A #deeplearning approach to protein design: When combined with detailed physical models, AI can capture properties normally only accessible through large-scale simulations. Protein sequence design by conformational landscape optimization | @PNASNews
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@UWproteindesign
Institute for Protein Design
2 years
IPD director David Baker, together w John Jumper and @DemisHassabis of DeepMind, will receive the 2022 Wiley Prize in Biomedical Sciences for pioneering work on protein structure prediction. Their award lectures will be streamed April 1. Learn more at:
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@UWproteindesign
Institute for Protein Design
2 years
"Baker and his colleagues tested their strategy on 12 target proteins. [T]he researchers wound up with miniproteins that bound as strongly as, if not stronger than, most antibodies do."
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@UWproteindesign
Institute for Protein Design
3 years
We are mourning the loss of Dan Tawfik, a brilliant researcher and longtime friend of the institute. His scientific accomplishments will endure, as will his kindness, generosity, and humor. Dan made the world a better place.
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@UWproteindesign
Institute for Protein Design
3 years
Dr. Anthony Fauci shared some news with Congress about our collaborative influenza vaccine research. Phase 1 trials are now underway! Paper is by @DanLikeProteins , @KingLabIPD , @kanekiyom , @BarneyGrahamMD , & many more.
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@UWproteindesign
Institute for Protein Design
4 years
New protein-based biosensors have been designed from scratch to enable direct detection of #SARSCoV2 particles. Additional sensors that detect COVID-19 antibodies are also described in our latest preprint: | #ProteinDesign
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@UWproteindesign
Institute for Protein Design
2 months
We're advancing a new global agreement signed by 100+ leading scientists to ensure AI technologies for protein design are developed responsibly. This field can deliver medicines, vaccines, and other innovations that benefit all.
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@UWproteindesign
Institute for Protein Design
1 year
“What we need are new proteins that can solve modern-day problems, like cancer and viral pandemics,” Dr. Baker said. “We can’t wait for evolution.”
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@UWproteindesign
Institute for Protein Design
2 years
Our Institute was founded ten years ago with a small team and a big vision. Now both are larger than ever! Thank you to everyone who helped make this first decade so much fun. Here's to many more 🎉
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@UWproteindesign
Institute for Protein Design
4 years
De novo design of picomolar SARS-CoV-2 miniprotein inhibitors | @biorxivpreprint
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@UWproteindesign
Institute for Protein Design
2 years
protein design
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@UWproteindesign
Institute for Protein Design
4 years
In a new report, we describe the de novo design & characterization of selective ion channels, as well as larger pores that permit the passage of fluorescent molecules thru cell walls. Computational design of transmembrane pores | | @nature #ProteinDesign
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@UWproteindesign
Institute for Protein Design
1 year
Researchers can access RF Diffusion through the open-source online platform ColabFold, which is part of the cloud-based Google Colaboratory. The code is also available:
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@UWproteindesign
Institute for Protein Design
2 years
The COVID19 vaccine developed by @KingLabIPD & @VeeslerLab has met its Phase 3 trial goals and is now under review for full authorization in Korea. SK bioscience, the company leading clinical development abroad, found the vaccine outperformed Oxford/AstraZeneca’s in the clinic.
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@UWproteindesign
Institute for Protein Design
3 years
Our trRosetta #deeplearning method has been applied to all protein families of unknown structure, yielded 6,370 new protein models. All now available in @PfamDB , with 3D structure views and contact maps in @InterProDB . Happy exploring! 🔬
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@UWproteindesign
Institute for Protein Design
2 years
Deep learning has revolutionized protein structure modeling. Here, David Baker and @minkbaek relate #AlphaFold and #RoseTTAFold to classical approaches to structure prediction and discuss the areas of structural biology that are likely to be transformed.
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@UWproteindesign
Institute for Protein Design
1 year
Tired: Writing your name on a grain of rice ✍️ Wired: Writing your name into an AI-generated protein 🧬 Try it for free in your browser ➡️
@ot_chip
Otto Chipashvili
1 year
just generated a protein with my name in it, very cool stuff from @UWproteindesign
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@UWproteindesign
Institute for Protein Design
1 year
RF Diffusion was developed by a team of computational biologists from @UWProteinDesign , @Columbia & @AIHealthMIT . Our thanks to @sokrypton for implementing it onto the ColabFold platform.
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@UWproteindesign
Institute for Protein Design
5 years
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@UWproteindesign
Institute for Protein Design
4 years
From modeling viral proteins to creating candidate vaccines, our scientists are taking on COVID-19. • 11,000+ de novo antiviral proteins are in testing • Nanoparticle vaccines already in animals 🐁 ( @KingLabIPD , @veeslerlab , @NIH ) Learn more:
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@UWproteindesign
Institute for Protein Design
5 years
Today's an exciting day! After many years of work, we're thrilled to report our latest advance in citizen science: @Foldit @UWBiochemistry @uwcse @RutgersU @dartmouth @Northeastern @HHMINEWS #citizenscience #proteindesign @nature
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@UWproteindesign
Institute for Protein Design
3 years
Honored to see our work on #deeplearning for protein structure prediction featured on the cover of @ScienceMagazine . Research was led by the tremendously talented @minkbaek . Article: Commentary:
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@UWproteindesign
Institute for Protein Design
6 years
Out today in @Nature Fluorescent proteins designed from scratch
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@UWproteindesign
Institute for Protein Design
2 years
A COVID19 nanoparticle vaccine designed @UWMedicine ( @KingLabIPD , @veeslerlab ) has achieved its Phase 1/2 clinical goals! In a trial led by SK Bioscience, the vaccine was found safe and generated high levels of neutralizing antibodies. Ph3 is underway.
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@UWproteindesign
Institute for Protein Design
1 year
We are thrilled to share that Dr. Lynda Stuart has joined as our new Executive Director. With her extensive experience and dedication to healthcare as a human right, the future of protein design looks brighter than ever. Learn more:
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@UWproteindesign
Institute for Protein Design
4 years
New: Synthetic proteins designed to bind Spike on SARS-CoV-2 provide starting points for COVID-19 therapeutics. @UWMedicine @veeslerlab @WUSTLmed De novo design of picomolar SARS-CoV-2 miniprotein inhibitors |
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@UWproteindesign
Institute for Protein Design
2 years
Today our admin team met with @RepJayapal to celebrate new Federal investments in 10 key projects across the Seattle area. Our request will enable the purchase of advanced laboratory equipment that will help us discover new cures for current and future pandemics.
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@UWproteindesign
Institute for Protein Design
2 years
De novo design of protein homodimers containing tunable symmetric protein pockets
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@UWproteindesign
Institute for Protein Design
4 years
Today we report the design of protein sequences that adopt more than one well-folded structure, reminiscent of viral fusion proteins. This research moves us closer to creating artificial protein systems with reliable moving parts. #ProteinDesign
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@UWproteindesign
Institute for Protein Design
5 years
Protein designers can't make molecules that move, right? Out today: "De novo design of tunable, pH-driven conformational changes" @sciencemagazine #proteindesign
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@UWproteindesign
Institute for Protein Design
10 months
@_biojmg We think it's the third option: three billion years of natural selection is not nearly enough time to sample even one percent of the vast protein universe. There have got to be remarkable —and useful — molecules still out there.
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@UWproteindesign
Institute for Protein Design
9 months
New this week: @definitelyphil and @FloPraetorius have created “hinge” proteins that adopt two shapes: one with ligand, one without. This control over molecular motion sets the stage for new applications in smart medicines and beyond.
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@UWproteindesign
Institute for Protein Design
4 years
Preclinical data out today: Our nanoparticle vaccine candidate for COVID-19 elicits ten times more neutralizing antibodies than vaccination with Spike alone. Led by @KingLabIPD , @veeslerlab | #ProteinDesign
@CellCellPress
Cell
4 years
New Article now online: Elicitation of potent neutralizing antibody responses by designed protein nanoparticle vaccines for SARS-CoV-2
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@UWproteindesign
Institute for Protein Design
5 years
Congrats to Brian Koepnick, Baker lab, for successfully defending his PhD today! Brian has helped a community of over 700k citizen scientists gain access to advanced tools for protein design. @Foldit #citizenscience
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@UWproteindesign
Institute for Protein Design
4 years
Reminder: Researchers on our COVID-19 vaccine design team will soon be answering questions live for a Reddit AMA! They'll be joined by @Foldit scientists working on antivirals. Monday, Mar. 30 11:00 AM PT 2:00 PM ET 6:00 PM GMT Look for us:
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@UWproteindesign
Institute for Protein Design
3 years
De novo design of modular and tunable protein biosensors | @Nature New sensors detect coronavirus proteins and antibodies | @UWMedicine
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@UWproteindesign
Institute for Protein Design
5 years
Congratulations to IPD founder David Baker for being named a 2018 Highly Cited Researcher. Dr Baker's publications are among the world's most influential, having achieved the highest percentile of peer citations in Biology & Biochemistry #HighlyCited2018 @webofscience
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@UWproteindesign
Institute for Protein Design
5 years
Today in @Nature : Programmable design of orthogonal protein heterodimers cc: @UWBiochemistry
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@UWproteindesign
Institute for Protein Design
3 years
In this new video, the team at @SciShow explains how A.I. is transforming protein science. "The future of biology is starting to take shape." — @hankgreen WATCH: #RoseTTAFold #AlphaFold #AlphaFold2
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@UWproteindesign
Institute for Protein Design
3 years
New reporting on our de novo designed COVID-19 antivirals: "When spritzed up the noses of mice & hamsters, it also appears to protect animals from becoming seriously sick." #ProteinDesign
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@UWproteindesign
Institute for Protein Design
3 years
Our friends at CellSpace are bringing beauty to this dark moment with a galley of art focused on the molecular biology of SARS-CoV-2. Included in the collection is this piece by @dr_opatel depicting our antiviral miniproteins (CC-BY-4.0) Full gallery:
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@UWproteindesign
Institute for Protein Design
3 years
New from our spinout @neoleukin : "De novo design of potent and resilient hACE2 decoys to neutralize SARS-CoV-2" | @ScienceMagazine #ProteinDesign
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@UWproteindesign
Institute for Protein Design
5 years
Meet LOCKR, a new synthetic protein switch. Its design and initial applications are detailed in dual reports out today in @Nature . @UWBiochemistry @UCSF @HanaScientist @langanbiotech @andrewng_synbio
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@UWproteindesign
Institute for Protein Design
2 years
New: Designed biosensors that can detect neutralizing antibodies against SARS-CoV-2 in blood. These quantitative devices may aid in monitoring vaccine durability. #proteindesign with @msdiamondlab @veeslerlab
@NatureBiotech
Nature Biotechnology
2 years
Thermodynamically coupled biosensors for detecting neutralizing antibodies against SARS-CoV-2 variants
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@UWproteindesign
Institute for Protein Design
9 months
Thrilled to have hosted the Korean Minister of Health & Welfare at our institute last week. Minister Cho met with some of the minds behind SKYCovione, our pioneering COVID-19 vaccine developed with SK bioscience. Proud to showcase our groundbreaking work in protein design.
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@UWproteindesign
Institute for Protein Design
4 years
The University of Washington’s Institute for Protein Design has become a hub to galvanize de novo protein engineering, citizen science and much more since its founding in 2012 | ⁦ @NatureBiotech
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@UWproteindesign
Institute for Protein Design
2 months
Our director David Baker recently shared his thoughts on the impact of AI on life sciences and healthcare startups. He spoke with Jenny Cronin at a @UWCoMotion event.
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@UWproteindesign
Institute for Protein Design
3 years
Are you (or someone you know) interested in postdoctoral research in protein design? We are always accepting new #postdocs ! Join us for an informational open house — Jan 13, noon PT Sign up here for Zoom link: | #ProteinDesign #postdocjobs
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@UWproteindesign
Institute for Protein Design
4 years
Deep #neuralnetwork that outputs relative distances & orientations of all residue pairs in a #protein aids in predicting protein structures — especially for proteins that have been designed (rather than evolved). #proteindesign #machinelearning @PNASNews
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@UWproteindesign
Institute for Protein Design
6 years
Congratulations to Frances Arnold on her #NobelPrize in #chemistry ! She is true pioneer in showing the world the awesome power of proteins.👩‍🔬 📷: @Caltech
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