Jeff Guo (@JeffGuo__) header
Jeff Guo (@JeffGuo__) profile picture

Researcher @IsomorphicLabs | Previously PhD student @SchwallerGroup | @MSFTResearch and @AstraZeneca

Joined December 2020
Photo by Jeff Guo (@JeffGuo__)Photo by Jeff Guo (@JeffGuo__)Photo by Jeff Guo (@JeffGuo__)Photo by Jeff Guo (@JeffGuo__)Photo by Jeff Guo (@JeffGuo__)Photo by Jeff Guo (@JeffGuo__)Photo by Jeff Guo (@JeffGuo__)Photo by Jeff Guo (@JeffGuo__)Photo by Jeff Guo (@JeffGuo__)Photo by Jeff Guo (@JeffGuo__)
Generate property-optimized small molecules with 𝘴𝘵𝘦𝘦𝘳𝘢𝘣𝘭𝘦 𝘢𝘯𝘥 𝘨𝘳𝘢𝘯𝘶𝘭𝘢𝘳 synthesizability control - allowing complete user-flexibility to impose various reaction constraints! Pre-print: arxiv.org/abs/2505.08774 Code: github.com/schwallergroup/sa… (1/4)
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Check out work led by @AntChen_ that introduces MARA to mitigate mode collapse in KL/entropy-regularized RL! Focusing on molecular design, there is generally a trade-off between generating high reward samples and sample diversity. (1/2)
RL causing diversity collapse in generative models (e.g. LLMs) is *not* a training failure. It’s what KL / entropy-regularized RL is provably *designed* to do. The good news: we have a simple, principled fix. Accepted to #ICLR2026 🧵🔽 [1/n]
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Plugging in MARA and comparing to the popular REINVENT algorithm, we observed that under a fixed computational budget, more high reward samples can be generated while *maintaining* (or even improving) diversity. Check out the Appendix for more molecular design results! (2/2)
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Is LLM ready for real scientific discovery? To find out, we gathered 50+ scientists from 20+ institutions establishing a multi-level evaluation framework: Not only on questions, but also on research scenarios and projects Current science benchmarks (like GPQA and MMMU) ask AI to answer quizzes. But science isn't a quiz. It’s an iterative loop of hypothesis, experiment, and analysis. Mastery of static, decontextualized questions, even if perfect, does not guarantee readiness to discovery, just as earning straight A’s in coursework does not indicate a great researcher. Today, we introduce Scientific Discovery Evaluation (SDE): A benchmark grounded in real-world research projects. There, research projects are decomposed into modular research scenarios from which vetted questions are sampled. LLMs are evaluated on 1. Question-level: targeted, expert-written problems embedded in real research scenarios (elucidating structure from NMR, forward reaction prediction, etc.), NOT sub-domains (analytical chemistry, inorganic materials, etc.) 2. Project-level: realistic scientific discovery loops (e.g., molecular design, materials discovery, protein engineering) where models must iteratively propose, test, and refine hypotheses. With a joint force of 50+ scientists from 20+ institutes, we gathered 8 projects, 43 research scenarios, and 1125 questions. Evaluation on these multiple levels reveals where current models succeed, where they fail, and why. It is of great joy to work with a 50+ author team in my first time of life - Thanks to you all for making it happen. @hello_jocelynlu, @YuanqiD, @BotaoYu24, @HowieH36226, @rogerluorl18, @YuanhaoQ, @YinkaiW, @Haorui_Wang123, @JeffGuo__, @SherryLixueC, @MengdiWang10, @lecong, @ParshinShojaee @KexinHuang5 @chandankreddy, @realadityanandy, @pschwllr, @KulikGroup, @hhsun1, @MoosaviSMohamad, and many others who are not in the x-universe. Also it’s exciting to see a concurrent release from @OpenAI on FrontierScience yesterday (@MilesKWang)! Their findings on the need for harder, expert-vetted evals, especially the huge performance gap between Olympiad and research questions, echo ours. SDE takes this a step further by moving beyond expert-level Q&A to explicitly evaluate the end-to-end discovery loop with project-level execution, where more finer-grained observations are thereby made possible. Core Findings Below:
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Check out @JunwuChen25 work on applying RL for goal-directed materials generation! Also check out Junwu's ablation experiments in the Appendix demonstrating the effect of the algorithm's components on *modulating* the optimization efficiency-sample diversity trade-off.
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In the pre-print, check out how 𝘨𝘦𝘯𝘦𝘳𝘢𝘵𝘪𝘷𝘦 design can loosely mimic virtual screening of ultra-large make-on-demand libraries - docking only 15,000 molecules identified promising candidates in a 142 billion space (amounting to 0.00001%)! (3/4)
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Work done with @VictorSabanza, @ZJoncev, Jeremy Luterbacher, @pschwllr Thank you to @NSERC_CRSNG and @NCCR_Catalysis for the support! (4/4)
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Jeff Guo retweeted
🔥 AutoAdsorbate 🔥 has been the workhorse of high throughput computation in heterogeneous catalysis modeling and ML @BASF for the previous few years. 🧵 Now it is available open source! #MatSci #CompChem Preprint: doi.org/10.26434/chemrxiv-20… Code: github.com/basf/autoadsorbat…
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🚨New preprint! ✨My precious✨ GOLLuM: GP-Optimized LLMs for Bayesian Optimization — the first of its kind! LLMs as deep kernels in GPs jointly optimized via marginal likelihood → implicit metric learning, calibrated uncertainty & superior sampling 🚀 📄 arxiv.org/abs/2504.06265
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Check out the updated published version of our pre-print in @ChemicalScience! (1) *General-purpose* generative model + retrosynthesis model = design molecules with optimized properties with an *explicit* predicted synthesis pathway Paper: pubs.rsc.org/en/content/arti… (1/2)
Molecular generative models can *directly* optimize for synthesizability using retrosynthesis models! Check out initial results which can be an alternative to synthesizability-constrained generation Pre-print: arxiv.org/abs/2407.12186v1 Code: github.com/schwallergroup/sa… (1/2)
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(2) Synthesizability heuristics (such as SA score) can be a noisy proxy for synthesizability but have out-of-distribution limitations (3) This approach can *generalize* across drug and materials design Thanks to my PI @pschwllr, @NCCR_Catalysis, and @NSERC_CRSNG! (2/2)
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LLMs are pretty bad at writing molecules, but quite good at analyzing mols and reactions! In our new work we use LLMs+search in chemical tasks, unlocking steerable synth. planning and mechanism prediction 🌟 1/ @TheoNeukomm @d_armstr @ZJoncev @pschwllr arxiv.org/abs/2503.08537
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🎉Our BoLudo paper is in @J_A_C_S! Bayesian Optimization for nanocrystaL strUcture Design Optimization (jk, it's BOjana & LUDO😂) We show you can optimize ANYTHING when put on the right scale - even nanocrystals with surface energy! Also we discovered a new Cu shape! See how👇
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Another chance to join our group! We are recruiting a PhD student in digital ligand engineering for nanocatalysis. Reposts and spreading the word to interested people in your network appreciated! jobs.ethz.ch/job/view/JOPG_e…
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1/ Starting material constrained synthesis planning is now possible using a general retrosynthesis algorithm *without* training a dedicated value network! Check-out our new paper, TangoStar. Preprint : arxiv.org/abs/2412.03424
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I'm looking for an intern to join our drug discovery efforts at MSR AI for Science! If you're a student (not necessarily PhD) and have published work in AI4S, please apply ASAP; start date is flexible but we're currently targeting early spring. aka.ms/AI4ScienceIntern
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We are hiring (resharing appreciated)! Given a few recent successful grant applications (I got my SNSF Starting Grant 🚀), we are extending the LIAC (@SchwallerGroup) team and have multiple openings (PhD/postdoc) for 2025. Are you interested in #AI4Science and machine learning with real-world applications in chemistry? Apply now (deadline: December 20th) by filling in the following form: forms.fillout.com/t/eq5ADAw3…. Interviews with selected candidates will take place in January/February. We offer a highly dynamic and collaborative environment with competitive salaries (epfl.ch/campus/services/huma…) and benefits (epfl.ch/about/working/workin…). We strongly encourage candidates of all different backgrounds and identities to apply. Each new hire is an opportunity for us to bring in a different perspective, and we are always eager to further diversify our team. Check out schwallergroup.github.io/.
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Excited about the intersection of AI and molecular sciences? Join us at the 'AI & the Molecular World' track @appliedmldays in Lausanne on Feb 13! The call for talks is now open: forms.gle/Q77Quw92KfsMUw19A
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