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Stephanie Wankowicz @stephanieaw.bsky.social · 24/09/2026

Follow updates on our research! prismscience.org/feed.xml

Reposted by Stephanie Wankowicz

Catherine Rampell @crampell.bsky.social · 20/09/2026

It really is striking how many authoritarian states have ended up in this exact same place, where the leader seizes control of scientific inquiry. Lysenkoism in the Soviet Union, Aryan Physics in the Third Reich, Great Leap Forward (also related to Lysenko) in China.

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Reposted by Stephanie Wankowicz

bioRxiv Biophysics @biorxiv-biophys.bsky.social · 20/09/2026

Optimizing the connectivity of protein conformations to untangle ensemble refinement www.biorxiv.org/content/10.64898/20…

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bioRxiv Biophysics @biorxiv-biophys.bsky.social · 17/09/2026

The CAHRA Challenge: A Community-Wide Assessment of Cryo-EM Heterogeneous Reconstruction Algorithms www.biorxiv.org/content/10.64898/20…

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Prism Science @prismscienceorg.bsky.social · 08/09/2026

We have not yet tapped the full potential of cryoEM. The method revolutionized structural bio with atomic-level detail, but has largely focused on proteins’ common lowest-energy states. With enough samples, cryoEM sees a broader energy landscape: It can capture *rare* states.

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Stephanie Wankowicz @stephanieaw.bsky.social · 08/09/2026

Proteins are always moving. They wiggle. They jiggle. They interact with their surroundings. That movement drives their function. Yet the motion stays mostly invisible. We cannot understand protein function, engineer it, or correct it until we can see the motion and predict it. prismscience.org

prismscience.org

Prism | Revealing the Dynamics of Life

Dynamic structural data, models, and language to become standard across the field. At scale, this is how we predict conformational ensembles across all of biology.

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Prism Science @prismscienceorg.bsky.social · 08/09/2026

We need new ways to understand disease & design drugs. Protein motion holds the answer.

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Reposted by Stephanie Wankowicz

Prism Science @prismscienceorg.bsky.social · 01/09/2026

Same mission, but an expanded vision for revolutionizing structural biology to better capture protein motion. Launching September 8.

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Stephanie Wankowicz @stephanieaw.bsky.social · 01/09/2026

Methods development is usually sequential: Collect, then process, then model, then encode, then interpret. At the @diffuseproject.bsky.social, we tackled all of these pieces once. That is what it takes to transform the field and unlock protein dynamics. See more: diffuse.science/posts/year-o...

diffuse.science

A Year (plus) of DiffUSE

Science progress over the first year-ish of the DiffUSE Project

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Stephanie Wankowicz @stephanieaw.bsky.social · 27/08/2026

New pub from @diffuseproject.bsky.social! Ordered water molecules mediate protein stability, ligand binding, and catalysis. Predicting them lags far behind protein structure prediction. We developed WaterFlow, a new state-of-the-art method for ordered water placement. www.biorxiv.org/content/10.6...

biorxiv.org

WaterFlow: Prediction of Ordered Water Molecule Positions on Protein Structures

Ordered water molecules mediate many protein functions, including stability, ligand binding, and catalysis. Predicting their positions with sub-angstrom accuracy would support protein design, binding ...

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Reposted by Stephanie Wankowicz

bioRxiv Biophysics @biorxiv-biophys.bsky.social · 27/08/2026

WaterFlow: Prediction of Ordered Water Molecule Positions on Protein Structures www.biorxiv.org/content/10.64898/20…

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Reposted by Stephanie Wankowicz

Richard Sever @richardsever.bsky.social · 27/08/2026

$3.7 billion spent on APCs in 2025. That's ~1000X more than it costs to run bioRxiv/medRxiv. Worth thinking about as we consider how to fund infrastructure... arxiv.org/pdf/2608.16322

arxiv.org

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Stephanie Wankowicz @stephanieaw.bsky.social · 11/08/2026

Most PDB structures report one set of coordinates. But the experimental data behind them, in both X-ray crystallography and cryo-EM, is produced by an ensemble of structures. How to extract this ensemble data at scale has been a quest in structural biology for 40+ years.

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Reposted by Stephanie Wankowicz

Lisa Fazio @lkfazio.bsky.social · 08/08/2026

Given the clear parallels between the new Vanderbilt "First Principles" and the text of the letter, I would be shocked if Vanderbilt didn't play a large role in the discussions www.vanderbilt.edu/declaration/ Reminder that faculty played no role in drafting or approving the first principles

vanderbilt.edu

Declaration

The University and Its Purpose: A Declaration of First Principles was adopted by the Vanderbilt University Board of Trust in June 2026. The declaration is organized around three core purposes: Pathbre...

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Reposted by Stephanie Wankowicz

pilarcossio.bsky.social @pilarcossio.bsky.social · 07/08/2026

⚡ Time is running out! ⚡ The deadline for the @biophysicalsoc.bsky.social Theory & Computation Awards is Sept 15! 🧬💻 Recognizing outstanding research across: 🎓 Postdocs 🌱 Early Career 🚀 Mid-Career Nominate a student or colleague! 🧪✨ 👇 Details: www.biophysics.org/Awards-Fundi...

biophysics.org

Subgroup Awards - The Biophysical Society

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Prism Science @prismscienceorg.bsky.social · 27/07/2026

In our latest blog, @fraserlab.com graduate student Taylor Womack discusses his roadmap before the results: how he plans to separate lattice vibrations from internal protein motion, which open tools he is using, and which parts are still unresolved. Feedback welcome. diffuse.science/posts/taylor...

xtraj.py

Is it all just the lattice?

Towards a complete forward model of diffuse scattering

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Reposted by Stephanie Wankowicz

Carolyn Bertozzi @carolynbertozzi.bskyverified.social · 26/07/2026

“If universities oppose the actions of the administration, they need to say so quickly so that their constituents aren’t left wondering whether there’s a plan. The alternative is a community of university scientists adrift and grasping for a lifeline.” www.science.org/doi/10.1126/...

science.org

University science in the US needs a coherent plan

The Trump administration continues to degrade America’s scientific establishment, causing widespread harm to the country’s broader interests and well-being. Last week, the Association of American Univ...

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Stephanie Wankowicz @stephanieaw.bsky.social · 20/07/2026

TTPD Episode 16: Cruel Kinase Summer with @fraserlab.com! We chat about a revolving door of consortium meetings, follow up on the OMB-proposed rule, two mini-protein kinase preprints, and how to share science, including differences between blogs and scholarly work. diffuse.science/posts/TTPD-16/

diffuse.science

Cruel Kinase Summer, Episode 16

The Tortured Proteins Department Podcast, Cruel Kinase Summer

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Reposted by Stephanie Wankowicz

Prism Science @prismscienceorg.bsky.social · 01/07/2026

Unlocking protein dynamics requires infrastructure we all can access. ICYMI: all of our software packages live on GitHub, updated in the open: github.com/diff-use

github.com

diffUSE

diffUSE has 15 repositories available. Follow their code on GitHub.

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Reposted by Stephanie Wankowicz

Prism Science @prismscienceorg.bsky.social · 29/06/2026

What's happening in protein dynamics research right now? Jaime & Stephanie break down NIH policy changes, preprints & the conformational ensembles conference. New episode up: diffuse.science/posts/TTPD-15/ #StructuralBiology

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Stephanie Wankowicz @stephanieaw.bsky.social · 17/06/2026

Modeling the solvent in X-ray structures is HARD, and a key reason for the mismatch between models & experimental data. But being able to test different ways to model bulk solvent and measure its impact on refinement will get us a step closer to figuring out how to account for it.

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Stephanie Wankowicz @stephanieaw.bsky.social · 15/06/2026

Excited to present sampleworks: a modular platform for generating biomolecular conformational ensembles by coupling AI structure predictors to experimental data. Our first publication of @diffuseproject.bsky.social, led by @karsonchrispens.bsky.social + Marcus Collins. thestacks.org/publications...

thestacks.org

sampleworks: A Modular Platform for Experimentally Guided Biomolecular Ensemble Generation

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Stephanie Wankowicz @stephanieaw.bsky.social · 14/06/2026

TTPD Episode 15 with @fraserlab.com! We chat about our conformational ensembles conference (paired talk FTW!), 4 different preprints, and new NIH disasters. podcasts.apple.com/us/podcast/d... diffuse.science/posts/TTPD-15/

podcasts.apple.com

Daylight

Podcast Episode · The Tortured Proteins Department · June 13 · 55m

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Reposted by Stephanie Wankowicz

Prism Science @prismscienceorg.bsky.social · 09/06/2026

We present sampleworks, an open, modular platform for generating and evaluating biomolecular conformational ensembles from structure predictors guided by experimental data doi.org/10.82153/jkx....

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Stephanie Wankowicz @stephanieaw.bsky.social · 05/06/2026

Closing this chapter means leaving an amazing team. These people took a chance, worked hard, and made the lab a fantastic place to work everyday.

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Reposted by Stephanie Wankowicz

Prism Science @prismscienceorg.bsky.social · 03/06/2026

Want to shape the future of structural biology? We are seeking a Project Manager to help lead the DiffUSE Project, guiding ML researchers, computational scientists, national labs, and university partners. Apply: buff.ly/gZlj9AP #StructuralBiology #MachineLearning #Hiring #AcademicSky

jobs.ashbyhq.com

Project Manager - DiffUSE Project

ABOUT DIFFUSE The DiffUSE Project is building open infrastructure to study protein dynamics using experimental data. The project spans wet-lab collaborators, computational scientists, ML researchers,…

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Stephanie Wankowicz @stephanieaw.bsky.social · 29/05/2026

Since World War II, the United States built the world’s preeminent scientific enterprise on a straightforward principle: federal dollars should fund the best science, as determined by independent experts rather than politicians. This proposed rule dismantles all of this.

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Reposted by Stephanie Wankowicz

Prism Science @prismscienceorg.bsky.social · 28/05/2026

The DiffUSE Project wants examples where structural heterogeneity matters but cannot be encoded in PDBx/mmCIF. X-ray, cryo-EM, time-resolved, multi-map, or fragment screening data welcome. Submit yours: diffuse.science/submit/

diffuse.science

Submit Examples of Heterogeneous Structural Data

The DiffUSE Project

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Reposted by Stephanie Wankowicz

Hannah Wayment-Steele @hkws.bsky.social · 17/05/2026

For any #nmr chemical shift aficionados, today I ported UCBshift(-X) from Teresa Head-Gordon's lab to work in modern Google Colab. Sharing in case its helpful! @nmr900.bsky.social colab.research.google.com/github/HWaym...

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Reposted by Stephanie Wankowicz

Prism Science @prismscienceorg.bsky.social · 13/05/2026

ICYMI: The latest Tortured Proteins Department episode. @stephanieaw.bsky.social and @fraserlab.com on: NIH strategic plan comments (due 5/26), AI lab guidelines, two new cryo-EM preprints, training scientists for what's next diffuse.science/posts/TTPD-14/

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The Tennessee Holler @thetnholler.bsky.social · 13/05/2026

So the Republican Supermajority breaks the law and violates the constitution to strip Memphis of representation — then Speaker Sexton strips Dems of committee assignments for daring to protest. Welcome to Tennessee.

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Reposted by Stephanie Wankowicz

Ardem Patapoutian @ardemp.bskyverified.social · 08/05/2026

The United States is a constitutional federal representative democracy. Or is it?

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Torsten Schwede @torstenschwede.bsky.social · 21/04/2026

The CASP experiment is about to start - and is still short on challenging prediction targets. Ligand complexes, RNA, …

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Reposted by Stephanie Wankowicz

Sonya @sonyahanson.bsky.social · 13/04/2026

Excited to announce this postdoc position at the intersection of experiment and computation for time-resolved cryo-EM! It's a collaboration between the Enchev group at the Crick and myself and @pilarcossio.bsky.social at the Flatiron Institute! Plz share. crick.wd3.myworkdayjobs.com/External/job...

crick.wd3.myworkdayjobs.com

Senior Data Scientist

Salary for this Role: From £53,025 per annum plus benefits, subject to skills and experience Job Title: Senior Data Scientist Reports to: Radoslav Enchev Closing Date: 06/May/2026 23.59 GMT Job Descri...

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Stephanie Wankowicz @stephanieaw.bsky.social · 08/04/2026

Year 3 of Conformational Ensembles Conference! The most compelling questions in structural biology cannot be effectively addressed with a single structure. We have a stellar lineup of people looking at and answering these questions. @fraserlab.com More information: conformationalensembles.github.io

conformationalensembles.github.io

Conformational Ensemble

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Stephanie Wankowicz @stephanieaw.bsky.social · 07/04/2026

Episode 13 Tortured Protein Department Podcast: Long Live with @fraserlab.com! Catch my big news with the @diffuseproject.bsky.social, psycho travel stories, April Fools pranks, and AI grad students. podcasts.apple.com/us/podcast/l...

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Alisia Fadini @alisiafadini.bsky.social · 01/04/2026

ROCKET 🚀 inference-time optimization of AlphaFold to fit structural data is published! rdcu.be/fa9YH Since our preprint, we’ve pushed it to regimes where other methods break: low resolution, weak signal, real experimental edge cases. Here’s what we learned: 1/15

rdcu.be

AlphaFold as a prior: experimental structure determination conditioned on a pretrained neural network

Nature Methods - ROCKET improves experimental structure elucidation by integrating implicit structural knowledge from OpenFold, a trainable reimplementation of AlphaFold2, with X-ray...

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Joe Greener @jgreener64.bsky.social · 01/04/2026

On this 1st April I'm happy to release a technical report from our startup MirageBio, describing a new protein structure model with state-of-the-art performance. jgreener64.github.io/posts/techni...

jgreener64.github.io

MirageBio technical report

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Matthieu Chavent @matthchavent.bsky.social · 27/03/2026

After three inspiring days filled with excellent science our @cecamevents.bsky.social meeting has come to an end!

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Stephanie Wankowicz @stephanieaw.bsky.social · 23/03/2026

I am honored to be the inaugural recipient of the George M. Sheldrick Award, which recognizes innovative methods, algorithms, or software. Sheldrick showed that building tools can help transform a field, something I am excited to carry on. See you @iucr2026.bsky.social. aucryst.org/sheldrick-aw...

aucryst.org

Bot Verification

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Colette Delawalla, PhD @cdelawalla.bsky.social · 16/03/2026

Breast cancer mortality dropped 58% from 1975 to 2019. Localized, early detected breast cancer has a 99% 5 year survival rate. Modern mammogram tech was developed by NASA for telescopes. Last year, RFK Jr. cancelled 87 research grants on breast cancer. www.nytimes.com/2026/03/16/u...

nytimes.com

Susie Wiles, Trump’s White House Chief of Staff, Has Breast Cancer

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