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Eli Weinstein

@eliweinstein.bsky.social
697 followers 194 following 26 posts

Assistant professor of chemistry at the Technical University of Denmark (DTU). Also at Jura Bio. machine learning, statistics, chemistry, biophysics eweinstein.github.io

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Reposted by Eli Weinstein
Elizabeth Wood, PhD @lizbwood.bsky.social · 24/09/2026
Introducing: continuous variational synthesis 📄 jurabio.com/s/cvs.pdf We’re pleased to announce a new advance in our ability to synthesize generative model-designed DNA sequences at petascale.
jurabio.com
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Reposted by Eli Weinstein
Elizabeth Wood, PhD @lizbwood.bsky.social · 08/08/2026
On model ablations: Linear models plateau on this data (dashed), even with foundation model representations (colors). We needed big transformers (solid) to scale.
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Eli Weinstein @eliweinstein.bsky.social · 07/08/2026
Very excited about our new results, showing variational synthesis + large scale screens + co-designed training -> robust scaling laws for sequence-activity models.
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Eli Weinstein @eliweinstein.bsky.social · 09/07/2026
thank you!!
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Eli Weinstein @eliweinstein.bsky.social · 07/07/2026
Overall, I am excited about geometric causal models' potential for bringing causal machine learning methods and ideas into new areas of science, including especially the molecular sciences where symmetries abound.
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Eli Weinstein @eliweinstein.bsky.social · 07/07/2026
This causal approach lets us derive novel equivariant estimators for the effects of mutations that combine these different models in different ways, drawing on advances in CATE estimation.
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Eli Weinstein @eliweinstein.bsky.social · 07/07/2026
We illustrate with a causal model for functional genomics that satisfies the symmetries of DNA. Methods such as AlphaGenome emerge as outcome models, while generative and masked DNA language models are the corresponding propensity models.
Diagram of a DNA sequence and genomic track, and a causal model relating the two.
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Eli Weinstein @eliweinstein.bsky.social · 07/07/2026
We show how to identify diverse causal effects in these models using ergodic theory, and derive practical estimators using geometric deep learning.
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Eli Weinstein @eliweinstein.bsky.social · 07/07/2026
These new geometric causal models describe causal relationships using equivariant maps, and can be used to draw causal inferences from complex scientific data, including spatial, graph, and molecular data.
Diagrams of sequence, spatial and array causal models.
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Eli Weinstein @eliweinstein.bsky.social · 07/07/2026
Classical causal methods assume data is iid, but this is often false in practice. Instead, we posit the data satisfies more general symmetries, specified in the language of group theory.
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Eli Weinstein @eliweinstein.bsky.social · 07/07/2026
Preprint: arxiv.org/abs/2607.051.... This is joint work with David Blei @bleilab.bsky.social
arxiv.org
Geometric Causal Models
Scientists often seek to draw causal inferences from structured data that is not independently and identically distributed, such as spatial data, network data, or molecular data. We develop geometric ...
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Eli Weinstein @eliweinstein.bsky.social · 07/07/2026
Our new preprint pushes causal machine learning into new scientific domains using probabilistic symmetry and geometry.
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Reposted by Eli Weinstein
Elizabeth Wood, PhD @lizbwood.bsky.social · 07/07/2026
We are hiring at @jura.bsky.social both on the ML team (worldwide) and the wetlab team (Boston). Please get in touch if you've been thinking about it. ⏩ careers@jurabio.com
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Eli Weinstein @eliweinstein.bsky.social · 17/03/2026
variational synthesis is now published, with the addition of large functional studies. we've now scaled the assays further, to train massive sequence-activity models www.jurabio.com/blog/scaling...
jurabio.com
Scaling frontier models in vitro — JURA Bio, Inc.
We examine what becomes possible when AI controls the full loop of data generation and model training. Using MESA, our dataset of 20.9 billion antibody–pHLA interactions, we trained Vista transformer ...
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Reposted by Eli Weinstein
Elizabeth Wood, PhD @lizbwood.bsky.social · 18/12/2025
Ever wondered what it'd be like to run a de novo antibody campaign against 100 of the hardest targets, simultaneously, with 76% success rate, and have the complete wetlab validated results days from the project's start? We show you what that looks like, too: www.jurabio.com/mesa
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Reposted by Eli Weinstein
Elizabeth Wood, PhD @lizbwood.bsky.social · 12/12/2025
Prediction is overhead when verification is cheap. We've spent years building a system where verification is cheap -- generationally so. This changes the logic of discovery in ways that are easy to underestimate. I tried to write a little about what that means: www.jurabio.com/blog/onebill...
jurabio.com
One billion simultaneous experiments — JURA Bio, Inc.
For decades, drug discovery has been constrained by a simple fact: experiments are expensive, so you have to guess well. We built a system where you don't have to guess — testing a billion distinct m...
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Reposted by Eli Weinstein
Elizabeth Wood, PhD @lizbwood.bsky.social · 03/12/2025
We are at the #StartupVillage at #EurIPS today — come say hi 👋 @jura.bsky.social
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Reposted by Eli Weinstein
Elizabeth Wood, PhD @lizbwood.bsky.social · 01/12/2025
Today we're releasing a technical blogpost on LIFT, a system that increases the information density of wetlab experiments by orders of magnitude without requiring more cells, more reagents, or more sequencing.
jurabio.com
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Reposted by Eli Weinstein
Jonathan Frazer @jonnyfrazer.bsky.social · 23/10/2025
Applications are open for the @crg_eu PhD Programme! 20 fully funded positions — including one in our group through the Evolutionary Medical Genomics ITN. Join us to develop deep generative models of cross-species data to tackle open questions in disease genetics. www.crg.eu/en/content/t...
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Eli Weinstein @eliweinstein.bsky.social · 21/10/2025
Paper: arxiv.org/abs/2510.16612 Blog: www.jura.bio/blog/leavs Team: @lizbwood.bsky.social @highvariance.bsky.social @mgollub.bsky.social
arxiv.org
Accelerated Learning on Large Scale Screens using Generative Library Models
Biological machine learning is often bottlenecked by a lack of scaled data. One promising route to relieving data bottlenecks is through high throughput screens, which can experimentally test the acti...
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Eli Weinstein @eliweinstein.bsky.social · 21/10/2025
We demonstrate empirically and prove theoretically that LeaVS can dramatically accelerate learning, increasing the effective dataset size by orders of magnitude.
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Eli Weinstein @eliweinstein.bsky.social · 21/10/2025
Crucially, it depends on jointly modifying the experimental protocol and the training algorithm: on their own, neither modification helps.
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Eli Weinstein @eliweinstein.bsky.social · 21/10/2025
This approach lets you focus limited measurements on the most informative datapoints, maximizing information gain without compromising reliability.
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Eli Weinstein @eliweinstein.bsky.social · 21/10/2025
Second, modify the training algorithm: compensate for the missing negatives by incorporating the generative variational synthesis model into the objective.
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Eli Weinstein @eliweinstein.bsky.social · 21/10/2025
First, modify the experiment: only measure positive examples of functional proteins. Don't spend a limited sequencing budget on any negatives.
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Eli Weinstein @eliweinstein.bsky.social · 21/10/2025
In this paper we describe a method to overcome this measurement bottleneck.
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Eli Weinstein @eliweinstein.bsky.social · 21/10/2025
To test, we can deliver billions of designs to different cells. But there is a cost to recovering those designs' function, to obtain (x,y) data.
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Eli Weinstein @eliweinstein.bsky.social · 21/10/2025
With variational synthesis, we can now build quadrillions of generative model-designed sequences. The bottleneck is now testing, not synthesis.
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Eli Weinstein @eliweinstein.bsky.social · 21/10/2025
Scaling up protein ML requires understanding and eliminating bottlenecks in the design-build-test-learn cycle.
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Eli Weinstein @eliweinstein.bsky.social · 21/10/2025
We're excited to present LeaVS, a method to scale up learning for protein function models. It is based on the co-design of wet lab experiments and in silico training.
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Reposted by Eli Weinstein
Elizabeth Wood, PhD @lizbwood.bsky.social · 06/10/2025
For every Nobel that goes to a criminally under-recognized woman scientist (Brunkow, Karikó), or fails to go (Candy Lee), a week of mourning and reform for an academic system wherein you can do Nobel-prize-worthy-work and still end up without a conceivable path to being a professor.
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Elizabeth Wood, PhD @lizbwood.bsky.social · 22/09/2025
You can read more in our post at www.jurabio.com/blog/leavs; preprint forthcoming. @jura.bsky.social @eliweinstein.bsky.social @mgollub.bsky.social @highvariance.bsky.social
jurabio.com
LeaVS: Accelerating learning for biological AI — JURA Bio, Inc.
A fundamental lesson of modern AI is that scale is essential: training bigger models on bigger datasets unlocks new capabilities. A fundamental lesson of AI engineering is that scaling up isn't trivia...
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Eli Weinstein @eliweinstein.bsky.social · 24/07/2025
I'm looking for my first PhD student! We will push the frontiers of probabilistic machine learning for the molecular sciences, and study how to design new algorithms that exploit the unique properties of molecular systems to learn about the world. efzu.fa.em2.oraclecloud.com/hcmUI/Candid...
efzu.fa.em2.oraclecloud.com
PhD scholarship in Machine Learning for Molecules - DTU Chemistry
Advance large scale data generation for chemical and biological AI in a 3 year PhD. Work on the frontier of active learning, and develop novel probabilistic machine learning techniques for experiment ...
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Eli Weinstein @eliweinstein.bsky.social · 22/07/2025
So excited about this - we did iterative generative design at large scale with variational synthesis, and got human scFv candidates against some of the hardest therapeutic targets around.
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Reposted by Eli Weinstein
Janus Juul Eriksen @januseriksen.bsky.social · 07/07/2025
🔊 The call for the first round of open PhD fellowships from the newly formed Danish Advanced Research Academy (DARA) has just been announced: daracademy.dk/fellowship/f... Exceptional candidates with a strong background in theoretical chemistry are more than welcome to reach out to me for support.
daracademy.dk
Dara
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Reposted by Eli Weinstein
Alan Amin @handle.invalid · 25/06/2025
We can make population genetics studies more powerful by building priors of variant effect size from features like binding. But we’ve been stuck on linear models! We introduce DeepWAS to learn deep priors on millions of variants! #ICML2025 Andres Potapczynski, @andrewgwils.bsky.social 1/7
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Eli Weinstein @eliweinstein.bsky.social · 29/05/2025
If you are interested in working with me as a student or postdoc, or otherwise collaborating, please reach out.
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Eli Weinstein @eliweinstein.bsky.social · 29/05/2025
Thrilled to announce that I am joining DTU in Copenhagen in the fall, as an assistant professor of chemistry. My research group will focus on fundamental methodology in machine learning for molecules.
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Reposted by Eli Weinstein
François-Xavier Briol @fxbriol.bsky.social · 02/04/2025
The BayesComp workshop on 'Bayesian Computation and Inference with Misspecified Models' will take place in Singapore on the 16-17th June. We have an open call for posters/contributed calls, with a deadline on the 1st May. More details on the website: postbayes.github.io/BayesMisspec...
postbayes.github.io
BayesComp Satellite Workshop on Bayesian Computation and Inference with Misspecified Models
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Elizabeth Wood, PhD @lizbwood.bsky.social · 31/03/2025
This Thursday, 1PM, @eweinstein.bsky.social is headed back to CMU, this time to the Machine Learning Department. He'll be sharing his work on hierarchical causal models. If you're on campus, I encourage to you check it out! www.ml.cmu.edu/calendar/
ml.cmu.edu
Calendar - Machine Learning - CMU - Carnegie Mellon University
Calendar of the Machine Learning Department at Carnegie Mellon University
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Reposted by Eli Weinstein
Elizabeth Wood, PhD @lizbwood.bsky.social · 19/03/2025
Tomorrow -- another chance to learn about variational synthesis, probabilistic experimental design methods, & ways to capture scaled functional data for model training: this time with zoom access for those of you remote, 1pm at @cmu.edu Computer Science. Details at: www.cs.cmu.edu/calendar/181...
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Reposted by Eli Weinstein
Elizabeth Wood, PhD @lizbwood.bsky.social · 18/03/2025
Today at UPenn's CIS Seminar: a chance to hear about variational synthesis, probabilistic experimental design methods, and ways to capture modern ML-scale functional data for biology: events.seas.upenn.edu/event/13596/
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Reposted by Eli Weinstein
Jonathan Frazer @jonnyfrazer.bsky.social · 28/11/2023
1/n I'm thrilled to share *Deep generative modelling of the human proteome reveals over a hundred novel genes involved in rare genetic disorders* t.co/DoN4DrSFbS from a wonderful collaboration between the Marks Lab and Dias and Frazer group, with @roseorenbuch as lead! 🧵:
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Elizabeth Wood, PhD @lizbwood.bsky.social · 24/09/2023
The news came out! Last week we signed a deal with the fantastic team at Replay Bio and their product company Syena to develop a KRAS G12D specific therapeutic TCR therapy. So proud and excited! www.businesswire.com/news/home/20...
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