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Bin Zhang

@binzmit.bsky.social
40 followers 21 following 7 posts

Associate Professor at MIT Chemistry; Enthusiastic about chromatin, biophysics, molecular dynamics, and AI.

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Bin Zhang @binzmit.bsky.social · 03/06/2026
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Bin Zhang @binzmit.bsky.social · 12/01/2026
Pretraining implicit solvent, or coarse grained, models is difficult, limiting the transferability of the resulting ML force fields. However, Justin just figured out a novel method for pretraining using protein language models. More can be found at: arxiv.org/abs/2601.05388
arxiv.org
Knowledge Distillation of a Protein Language Model Yields a Foundational Implicit Solvent Model
Implicit solvent models (ISMs) promise to deliver the accuracy of explicit solvent simulations at a fraction of the computational cost. However, despite decades of development, their accuracy has rema...
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Reposted by Bin Zhang
Xuhui Huang @xuhuihuangchem.bsky.social · 14/12/2025
Excited to see our IGME models applied to unravel the free energy landscape of the tetra-nucleosome. Wonderful collaboration with @binzmit.bsky.social! Congrats to all the authors!
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Bin Zhang @binzmit.bsky.social · 08/12/2025
Join us for the summer!
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Bin Zhang @binzmit.bsky.social · 05/12/2025
Thrilled to share our new JCP editorial (shorturl.at/6mKdY), co-authored with @tamar_schlick, introducing the special collection “Chromatin Structure and Dynamics: Recent Advancements.” Huge thanks to all the outstanding contributors!
shorturl.at
Chromatin structure and dynamics: Recent advancements
Chromatin structure and dynamics are central to nearly every aspect of eukaryotic gene regulation. The spatial organization of the genome influences how genes a
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Bin Zhang @binzmit.bsky.social · 15/11/2025
We welcome 1st-year graduate student Chenxi Ye to join the group!
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Bin Zhang @binzmit.bsky.social · 09/11/2025
Our preprint on a single-bead-per-nucleotide DNA model is live! This model reproduces both atomistic simulations and persistent length for a variety of sequences. It's compatible with openMM, allowing for highly efficient GPU simulations. www.biorxiv.org/content/10.1....
biorxiv.org
NEAT-DNA: A Chemically Accurate, Sequence-Dependent Coarse-Grained Model for Large-Scale DNA Simulations
DNA's physical properties play a central role in genome organization and regulation, but simulating its behavior across biologically relevant scales remains a major computational challenge. Coarse gra...
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Bin Zhang @binzmit.bsky.social · 09/11/2025
First post on bluesky.
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