Rahel Woldeyes

GitHub - czimaginginstitute/zarr-particle-tools: Particle extraction and reconstruction from OME-Zarr tilt series. Particle extraction and reconstruction from OME-Zarr tilt series. - czimaginginstitute/zarr-particle-tools

Hi #teamtomo! Want to use OME-Zarr for your tilt series but can't integrate it with your existing sub-tomogram averaging pipelines?

Try zarr-particle-tools - RELION-style extraction & reconstruction built for OME-Zarr-based workflows!

📦 pip install zarr-particle-tools
🔗 github.com/czimagingins...

Thanks for a great talk!

Muyuan Chen has turned structural biology into an immersive experience with his new video game Meowtabolism, now available on Steam.
Try the demo here: store.steampowered.com/app/4045010/...
Give Muyuan feedback: steamcommunity.com/app/4045010
#ScienceGaming #StructuralBiology #CryoEM #STEMOutreach

Correlative MS Imaging for cellular identification and analysis of in situ cryo-ET https://www.biorxiv.org/content/10.1101/2025.09.16.676641v1

AlphaFold developer Google DeepMind to fund CASP as NIH funding falls short Protein structure prediction contest CASP gets temporary funding from Google DeepMind as NIH grant runs out.

NEW from me at STAT:

We've learned that DeepMind is going to fund CASP, the protein structure competition that brought Google DeepMind's #AlphaFold to prominence (and a Nobel Prize), as its NIH funding runs out.

More @statnews.com:
www.statnews.com/2025/07/21/c...

🖥️🩺🧪🧬 #bioML

An exciting future for microbial molecular biology and physiology | mBio The first two bacterial genomes were sequenced nearly 30 years ago (1, 2). The cost of one of those sequences, that of Haemophilus influenzae, was over 1,000,000 U.S. dollars and took multiple years (...

A future perspective article on the next 10 years in microbial molecular biology and physiology is online now.
journals.asm.org/doi/10.1128/... 🧵👇

Can AI build a virtual cell? Scientists race to model life’s smallest unit Several groups hope to develop artificial-intelligence models that can predict how cells behave.

www.nature.com/articles/d41... #heartmusclecells :)

Ever wonder why SGD, which works so well for ab initio cryo-EM, never seems to get to high resolution on its own? Well, we have the answer: conditioning!

ERC grantee wins the Shaw Prize in Life Science and Medicine 2025 Shaw Prize honours ERC-funded research in molecular imaging

🎉 Congratulations to Wolfgang Baumeister @maxplanck.de, awarded the 2025 #ShawPrize in Life Science & Medicine for pioneering work in cryo-ET!

Learn more 👉 europa.eu/!JBXDBG
#FrontierResearch #ERCSyG #CryoET #StructuralBiology #shawprize2025

I was awestruck by the work I saw presented at the CZI Imaging Institute today. They are pursuing difficult problems head on with great ideas and the right people, and it's paying off in progress. In situ structural biology is going to be a solved problem. A million thanks to my host Shawn Zheng.

I’m delighted that we could contribute the #cryoEM data to this incredible antiviral discovery project from the group of @neytsjohan.bsky.social 💊

"A coronavirus assembly inhibitor that targets the viral membrane protein"

www.nature.com/articles/s41...

A huge congrats to everyone involved! 🎉

Nucleotide and metalloid-driven conformational changes in the arsenite efflux ATPase ArsA A common mechanism of arsenic detoxification in bacteria is arsenite (AsIII) efflux facilitated by the ArsAB pump that couples metalloid transport to ATP hydrolysis. The cytoplasmic ATPase component, ...

A new paper from our lab is available at doi.org/10.1101/2025.... The work describes how ArsA, which is involved in arsenic detoxification, utilizes nucleotides to drive dramatic conformational changes—multiple EM structures of a 64kDa protein. Congratulations to Shivansh Mahajan.

The Mechanisms and Innovations in Cardiovascular Disease T32 Training Grant is currently recruiting PhD and MD scientists to join its postdoctoral training fellowship.

To apply, please follow this link: stanforduniversity.qualtrics.com/jfe/form/SV_....

AreTomoLive: Automated reconstruction of comprehensively-corrected and denoised cryo-electron tomograms in real-time and at high throughput www.biorxiv.org/content/10.1101/2025.03.11.642690v1 #cryoEM

Thank you 😊. CryoET is amazing!!

Structure of the Thin Filament in Human iPSC-derived Cardiomyocytes and its Response to Heart Disease Cardiovascular diseases are a leading cause of death worldwide, but our understanding of the underlying mechanisms is limited, in part because of the complexity of the cellular machinery that controls...

www.biorxiv.org/content/10.1... #teamtomo #cryoET

Notre Dame is so back

AlphaFold as a Prior: Experimental Structure Determination Conditioned on a Pretrained Neural Network Advances in machine learning have transformed structural biology, enabling swift and accurate prediction of protein structure from sequence. However, challenges persist in capturing sidechain packing,...

Watch out for an upcoming bluetorial/tweetorial on this work from the amazing @alisiafadini.bsky.social!

www.biorxiv.org/content/10.1...

Innovative target design leads to surprising discovery in laser-plasma acceleration Scientists studying laser-plasma proton acceleration made an unexpected breakthrough, simultaneously resolving multiple long-standing problems although they had only aimed to address one.

www6.slac.stanford.edu/news/2025-02...

My heart goes out to all my NIH people. Unbelievable.

It’s been a tough few weeks. My 10yo daughter was diagnosed with a very rare, aggressive cancer called interdigitating dendritic cell sarcoma (IDCS). I’m reaching out to identify clinicians/patients who have encountered pediatric IDCS or other (non-LCH) dendritic or histiocytic sarcomas cases.

Deeply saddened by the passing of Prof. Mike Sheetz, a true leader in Mechanobiology. His groundbreaking work on Kinesin, membrane organization, and mechanotransduction has left an indelible mark. A tremendous loss to science. #Mechanobiology #Science #LaskerAward

a cartoon says hey everybody an old man 's talking while bart simpson looks on ALT: a cartoon says hey everybody an old man 's talking while bart simpson looks on

A special Bluetorial about one of my mentors Ruth Kirschstein

Among Ruth Kirschstein’s many contributions to American science was the development and expansion of programs intended to increase participation of people from groups underrepresented in biomedical research.

@caltech.edu asked Dr. Pamela Bjorkman "if overusing antibiotics can be harmful. Should we worry about overusing vaccines too?" The short answer is no.
Swipe to learn more from Caltech's Pamela Bjorkman.
#AskCaltech at caltech.edu/AskCaltech. 1/2

Let me give a concrete example of the importance of applications with high risk-high reward as well as the role of NIH staff in taking risks.

Decades ago, a physical chemist proposed ideas about doing mass spectrometry on proteins (when this was deemed probably impossible).

1/n

I've been hoping that someone would attempt to train a structure prediction model against experimental data (rather than 3D coordinates), and hopefully this is a step in that direction

SFCalculator: connecting deep generative models and crystallography
doi.org/10.1101/2025...

You want to build an apparatus for time-resolved cryo-EM?
Easy:
bio-protocol.org/en/bpdetail?...

The info session for our FutureHouse fellowship is TOMORROW, Tuesday, 9:00am Pacific time. Come get all your questions answered! Details are on our website: www.futurehouse.org/fellowship

Now for an AI generated image that we present as an offering to the Algorithms, may they Boost our Post.