Research

Biopolymers (flexible rods), biomembranes (fluid sheets like soap bubbles), and biomolecular bonds are the Lego blocks of cells, used repeatedly inside cells to build a variety of nanometer-sized machines that help perform functions, like allowing cells to divide, crawl, organize their interiors, sense their environment and communicate with other cells.

The mission of our research group is to make rigorous, relevant contributions to the scientific knowledge of humanity. We use computational, mathematical and biophysical approaches to figure out how living cells use force, space and time in their problem-solving strategies.

Some of the approaches we use (papers on the Publications page):

  • Continuum modeling — e.g. fluid dynamics, solid mechanics Liu et al. 2019, Berg et al. 2025
  • High-dimensional learning algorithms Allard 2025
  • Stochastic calculus — e.g. Itô methods Newby & Allard 2016, Allard et al. 2019
  • Classical polymer physics Bogue et al. 2025, Corrette et al. 2025

We focus on open science including reproducible open code, so that the basic science discoveries we make become part of the worldwide, multi-generational tapestry of scientific knowledge that benefits all.

Recent work

Reading the immune signal

How does a T cell read a single molecule of antigen and decide to respond? We model the immuno-receptors that do the reading, asking how force and geometry sharpen a noisy signal.

We can make the flexibility of a model match the hypothesis being tested -- more flexibility is not always better, if it prohibits rejection of the hypothesis. Here is one simple case involving T cells where it made a difference! www.biorxiv.org/content/10.1...

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— Jun Allard (@allardlab.bsky.social) Sep 8, 2025 at 11:07 AM

Building the cell’s skeleton

Cells assemble their own mechanical structure, growing and branching filaments with proteins like formins. We study how simple rules at single filaments add up to the architecture of the whole network — and the how that network snaps into one connected whole, or comes apart.

Brady Berg's new work is out on biorxiv! Shows a surprising connection between astral architecture and percolation in the cytoskeleton. www.biorxiv.org/content/10.1...

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— Jun Allard (@allardlab.bsky.social) Sep 8, 2025 at 11:06 AM

The physics of DNA

DNA is both a container for information and a mechanical biopolymer. Using polymer theory, we ask how bending, looping and crowding set what a strand of nucleic acid can actually do.

Our paper, lead by Jack Corrette, with Timothy Downing and Andrew Spakowitz is out in Nucleic Acids Research! academic.oup.com/nar/article/...

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— Jun Allard (@allardlab.bsky.social) Sep 8, 2025 at 11:03 AM

Other questions we pursue: how cells coordinate across long distances through airinemes, and how membranes bend, bud and reshape themselves.