Suri Vaikuntanathan
@vaikuntsuri.bsky.social
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📥 254
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https://vaikuntanathan-group.uchicago.edu
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
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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...
https://go.aps.org/49O1yHO
25 days ago
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Yes, Congrats Anna !!!
add a skeleton here at some point
about 1 month ago
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reposted by
Suri Vaikuntanathan
Suraj Shankar 🏳️🌈
about 1 month ago
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
about 2 months ago
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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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 !!
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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...
https://arxiv.org/abs/2507.07295
4 months ago
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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.
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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...
https://nature.com/articles/s41467-025-61873-0?utm_source=rct_congratemailt&utm_medium=email&utm_campaign=oa_20250805&utm_content=10.1038/s41467-025-61873-0
4 months ago
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This is was a wonderful collaboration ! Hopefully many more ! :)
add a skeleton here at some point
4 months ago
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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
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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...
https://arxiv.org/abs/2504.15107
8 months ago
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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.
8 months ago
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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...
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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...
https://pubs.rsc.org/en/content/articlelanding/2025/sc/d4sc06351a
12 months ago
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reposted by
Suri Vaikuntanathan
Mary Williard Elting
about 1 year ago
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
add a skeleton here at some point
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reposted by
Suri Vaikuntanathan
Itai Yanai
about 1 year ago
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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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
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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...
https://arxiv.org/abs/2411.09588
about 1 year ago
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(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.
about 1 year ago
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Check out new work
arxiv.org/abs/2411.07233
by Alexandra, Agnish, Aditya and Cal on generative diffusion but with correlated or ``active" noise.
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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...
http://arxiv.org/abs/2411.07233
about 1 year ago
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@chembiobryan.bsky.social
ok I followed you and
@krishnanyamuna.bsky.social
about 1 year ago
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you reached the end!!
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