Nathan

759 posts

Nathan

Nathan

@nclack

Katılım Ocak 2009
188 Takip Edilen100 Takipçiler
Nathan retweetledi
Alex Rives
Alex Rives@alexrives·
Together with UC Berkeley we are announcing the laser phase plate - a breakthrough in atomic resolution imaging. This is the brightest continuous wave laser in the world, 100 million times the intensity of the surface of the sun. Phase contrast plays an important role in microscopy, but it was thought close to impossible for electron microscopy, where it would require interfering with an electron beam. Holger Mueller and Robert Glaeser proposed exactly this using a standing wave laser. It has taken over 15 years to make this a reality. Biohub partnered with UC Berkeley and Mueller to support this work and to engineer and build the technology. Contrast has been the critical barrier to achieving atomic resolution imaging of the cell. In cryo-electron tomography, a cellular imaging technology that uses electron microscopy, the low contrast makes it impossible to resolve anything but the largest proteins within their cellular context. The laser phase plate removes that barrier. With advances in AI this breakthrough in contrast will start to open up a new frontier in structural biology, that will allow us to see the molecular machines of the cell, and how they assemble into far more complex and dynamic systems, and understand how they work.
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Alex Rives
Alex Rives@alexrives·
Today we're announcing ESMFold2, an open scientific engine to power prediction, design, and discovery across protein biology. The new model delivers state of the art performance on protein interactions, especially antibodies, a critical modality for therapeutics. We have designed and validated miniprotein binders and single chain antibodies across five therapeutic targets that are important in cancer and immunology. We are seeing very high success rates, and affinities at levels consistent with therapeutic activity. We’re also releasing an atlas of 6.8 billion proteins, and 1.1 billion predicted structures. ESMFold2 is built on a state of the art language model that has been trained on billions of protein sequences. A world model of protein biology emerges through language modeling. We’ve used the techniques of mechanistic interpretability developed to understand large language models to understand the concepts ESM uses to represent proteins. The model’s representation space has a compositional organization of features across scales, levels of complexity, and abstraction, that reflects and mirrors the understanding of protein biology developed through a century of empirical science. This understanding emerges without prior knowledge, just from language modeling of protein sequences. Language models are becoming a powerful substrate to understand and program biology. The design of protein interactions is one of the most fundamental problems in biophysics, and has critical implications for the discovery of new medicines. A simple gradient based search with the model was able to discover high-affinity protein binders. I'm excited by the potential this has to accelerate basic science and the understanding of proteins. And especially for the new avenues it opens up for therapeutic design and medicine.
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HHMI | Janelia
HHMI | Janelia@HHMIJanelia·
🎉Congratulations to Luke Lavis (@rhodamine110), recipient of the 2025 Gregorio Weber Award for Excellence in Fluorescence Theory and Applications from @ISSfluorescence for his pioneering work on the design & synthesis of small-molecule fluorescent dyes.🧪
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Mark Kittisopikul
Mark Kittisopikul@markkitti·
Who is interested in microscopy and Zarr?
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Stephani Otte
Stephani Otte@Stephani_Otte·
We are hiring a Director, AI/ML Imaging! lnkd.in/gzVn2mr7. Apply for this exciting opportunity or share with your networks.
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Brian Northan
Brian Northan@truenorth_ia·
The Napari annual survey is here. Napari is an amazing tool for image analysis and 3D visualization and will only get better in the coming years. Filling out the survey is a great opportunity to express how you would like to see Napari improve napari.typeform.com/survey-2023?ut…
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Adam Glaser
Adam Glaser@adam_k_glaser·
I am looking for a postbac to join my team in summer 2024. A great opportunity to join the Allen Institute through the Postbaccalaureate Program. Please share with anyone who may be interested! #interns-postbac-listing" target="_blank" rel="nofollow noopener">alleninstitute.org/careers/intern…
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Tim Davison ᯅ
Tim Davison ᯅ@timd_ca·
Zooming around a bacteria cell. It's so cool I just got the cell imported (including lipids) and rendering correctly with the new rendering engine (it's called Angstrom). 3x performance boost! So much detail (too much?!) #screenshotsunday #gamedev #scicomm #xcode #swiftlang
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biohub
biohub@biohub·
Congrats on this milestone! It was great to partner on integrating Acquire, a new high-speed, multi-camera image acquisition software, into the ExA-SPIM microscope
allen institute@AllenInstitute

✨🔬 Meet ExA-SPIM, a revolutionary new microscope and tissue processing combo, developed at the Allen Institute for Neural Dynamics, that is showing scientists the brain as it’s never been seen before. 🔗 biorxiv.org/content/10.110…🧵

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Adam Glaser
Adam Glaser@adam_k_glaser·
How do you image the large and the small at the same time? We developed new 🔬 technology to image centimeter-scale specimens - including whole mouse brains 🧠 - with diffraction-limited resolution and without sectioning. #mesoscale #imaging biorxiv.org/content/10.110… 🧵 (1/n)
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zarr_dev
zarr_dev@zarr_dev·
Hi everyone! 👋🏻 The Zarr Specification V3 (ZEP0001) is in the review phase! 🔍 We're planning to finalise the spec by 5/6. 🗓️ We're looking for the community's feedback. If you use Zarr in any way, please let us know your thoughts here. 👇🏻 github.com/zarr-developer…
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William Benner
William Benner@WilliamBennerJr·
@Labrigger Yep, I know it! The problem is there are market opportunities for other things we're working on too. We know what to do and how to do it -- just need more talented mechanical engineers. If anyone is interested, please contact us and we'll put you to work right away!
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Benedict Diederich
Benedict Diederich@beniroquai·
Quick update: Expect something "big" coming from @openUC2 inside #ImSwitch. Large-scale tiled image scanning in realtime inside @napari_imaging. I'm still a big fan of #opensource :D CC: @xaviercasasm
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Benedict Diederich@beniroquai

@napari_imaging people is there anybody working on a stitching tool that concatenates 2D tiles into a larger grid? Like blog.dask.org/2021/12/01/mos… but for Histo slide scans? In the best case: On-the-fly (e.g. microscope captures, Napari Renders) CC:@dask_dev,@_malberto,@DataNerdery

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Eric Wastl
Eric Wastl@ericwastl·
Here's something fun; of the 125,000 #AdventOfCode repositories on GitHub, this is the language breakdown:
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