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Suri Vaikuntanathan

@vaikuntsuri.bsky.social
146 followers 261 following 28 posts

vaikuntanathan-group.uchicago.edu

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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 10/09/2026
New work led by Matt Du w/ Cal & Dipti. Classical reaction networks don't get more expressive with size unless the input touches more rates. What if the network is a driven-dissipative quantum system? Coherence makes expressivity scale with N for free. arxiv.org/abs/2609.10448
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 29/05/2026
Check out new work by Elisabeth Rennert, with Agnish & Yuqing: can a generative AI model predict the drivers of cortical flow from just images — trained only on minimal, extremal data? We show how it can 👉 doi.org/10.64898/202...
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 30/01/2026
Excited to share a (long overdue revised version of) work arxiv.org/pdf/2411.07233 : Non-equilibrium active noise enhances generative memory in diffusion models -- TLDR. the ⟨x·η⟩ correlations that drive pressure like effects in active matter help with generative properties and speciation.
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 13/01/2026
Super excited to share new work by Cal and Hector arxiv.org/abs/2601.06712 Can In-Context Learning (i.e. a mode of computation typically associated with transformer architectures) emerge in simple chemical reactions ?
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 17/12/2025
Excited to share new work by Daiki and Hector in collaboration with Monika: arxiv.org/abs/2512.13859 We introduce a gating mechanism in classic associative memory models and find capacity is increased far above the Hopfield limit without the usual catastrophic breakdown.
arxiv.org
Neuromodulation-inspired gated associative memory networks:extended memory retrieval and emergent multistability
Classical autoassociative memory models have been central to understanding emergent computations in recurrent neural circuits across diverse biological contexts. However, they typically neglect neurom...
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 17/12/2025
Super happy to be associated with this work !!
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 12/11/2025
Check out new work by Agnish, Matt and co-workers. Active, persistent dynamics can mimic Hebbian “unlearning,” hinting that nonequilibrium physics offers a new route to sharpen associative recall in neural nets. go.aps.org/49O1yHO @uchichemistry.bsky.social
go.aps.org
Connection between Hebbian Unlearning and Steady States Generated by Nonequilibrium Dynamics
Active persistent dynamics are shown to mimic some aspects of Hebbian unlearning --- suggesting that nonequilibrium dynamics can provide an alternative way to improve associative recall in neural netw...
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 27/10/2025
Yes, Congrats Anna !!!
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Reposted by Suri Vaikuntanathan
Suraj Shankar 🏳️‍🌈 @surajshankar.bsky.social · 24/10/2025
Preprint 🚨! B cells form localized patterns in the immune synapse when mature, allowing improved affinity discrimination. How? We suggest a new mechanism using dynamic active forces and feedback! Read more @ arxiv.org/abs/2510.18771. Great colab with Shenshen Wang, Tom Chou and Tony Wong (UCLA).
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Reposted by Suri Vaikuntanathan
Bryan Dickinson @chembiobryan.bsky.social · 15/10/2025
This paper was a truly @uchichemistry.bsky.social team effort, jointly led by Shannon Lu, Matt Styles, and Frank Gao with me, Aaron Dinner, and @vaikuntsuri.bsky.social – along with a critical support cast. 12/12
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 08/08/2025
Check out arxiv.org/abs/2507.07295 by Cal Floyd where we derived the new non-equilibrium thermodynamic constraint: Intuitively, it says that if we know a system's response at low drive, it will have the same sign at arbitrarily high drive— no matter how close or far from equilibrium !!
arxiv.org
Local imperfect feedback control in non-equilibrium biophysical systems enabled by thermodynamic constraints
Understanding how biological systems achieve robust control despite relying on imperfect local information remains a challenging problem. Here, we consider non-equilibrium models which are generically...
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 08/08/2025
Very happy to share work by Cal Floyd now out in Nature Communications nature.com/articles/s41... . We show that the "expressivity" of biophysical decision making circuits is constrained in unexpected ways by non-equilibrium thermodynamics.
nature.com
Limits on the computational expressivity of non-equilibrium biophysical processes - Nature Communications
How cells use biophysical processes to interpret complex input signals is not well understood. This study reveals limits to the computational power of generic non-equilibrium systems and shows how the...
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 08/08/2025
This is was a wonderful collaboration ! Hopefully many more ! :)
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 22/04/2025
check out new work by Deb in collaboration with Martin, @squishycell.bsky.social , Aleks Walczak and Thierry Mora : arxiv.org/abs/2504.15107 o on how simple mechanosensitive agents can enable learning mechanisms
arxiv.org
Learning via mechanosensitivity and activity in cytoskeletal networks
In this work we show how a network inspired by a coarse-grained description of actomyosin cytoskeleton can learn - in a contrastive learning framework - from environmental perturbations if it is endow...
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 04/04/2025
Check out new work by Jordan in collaboration with Aaron Dinner and Petia Vlahovska ! arxiv.org/abs/2503.24120 We consider minimal protocels under non-equilibrium growth conditions and extract low (2) dimensional rules to describe their shapes.
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 16/12/2024
Very happy to share new work in collaboration with Sergey Semenov and coworkers. Lissa and Yuqing analyzed the waves in latent space and found a low dimensional representation of the waves. pubs.rsc.org/en/content/a...
pubs.rsc.org
Chemical waves in reaction-diffusion networks of small organic molecules
Chemical waves represent one of the fundamental behaviors that emerge in nonlinear, out-of-equilibrium chemical systems. They also play a central role in regulating behaviors and development of biolog...
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Reposted by Suri Vaikuntanathan
Mary Williard Elting @mwelting.bsky.social · 15/11/2024
Very excited to share a thread about our new preprint! It's a highly collaborative project, w key contributions from @josephlannan.bsky.social (in my lab) @bhamlalab.bsky.social (+ GS Luke Xu), Dinner Lab (+ PD Cal Floyd), Jerry Honts, Marshall lab (+ GS Connie Yan), and Suri Vaikuntanathan 1/13
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Reposted by Suri Vaikuntanathan
Itai Yanai @itaiyanai.bsky.social · 17/11/2024
We need to have a ‘code of conduct’ for reviewing manuscripts, like (1) if you say that something is not novel then provide the reference. (2) If you propose an experiment, state precisely to which claim it is crucial. (3) If you want to say something nasty then sign your name.
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 15/11/2024
Check out new work by Cal on using Reinforcement Learning to control the dynamics of defects in an active nematic arxiv.org/abs/2411.09588
arxiv.org
Tailoring interactions between active nematic defects with reinforcement learning
Active nematics, formed from a liquid crystalline suspension of active force dipoles, are a paradigmatic active matter system whose study provides insights into how chemical driving produces the cellu...
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 14/11/2024
(Older post from the other side) Very happy to share work by Cal (w Aaron and Arvind Murugan ) arxiv.org/abs/2409.05827 ! We show how the expressivity/computational ability of non-equilibrium biological processes may expected to be fundamentally limited.
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 14/11/2024
Check out new work arxiv.org/abs/2411.07233 by Alexandra, Agnish, Aditya and Cal on generative diffusion but with correlated or ``active" noise.
arxiv.org
Score-based generative diffusion with "active" correlated noise sources
Diffusion models exhibit robust generative properties by approximating the underlying distribution of a dataset and synthesizing data by sampling from the approximated distribution. In this work, we e...
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Suri Vaikuntanathan @vaikuntsuri.bsky.social · 14/11/2024
@chembiobryan.bsky.social ok I followed you and @krishnanyamuna.bsky.social
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