By exploring an ensemble of feedback control immune designs, we quantified trade-offs between effective pathogen clearance and immunopathology. We identified genetic signal-processing perturbations that could improve efficacy while limiting toxicity of T-cell immunotherapies against cancer.
Topics of interest:
(1) Physics-inspired machine learning for molecular immune-pathogen recognition.
(2) Modeling cell-fate decisions in dynamic environments to
build predictive, controllable models of immune responses across cellular and tissue conditions.
check out our manuscript (led by Obinna Ukogu) on Design principles of cytotoxic T-cell response: www.biorxiv.org/content/10.1...
excited that this paper is finally out in @pnas.org :
www.pnas.org/doi/10.1073/...
Led by Gian Marco Visani (effort initiated by Michael Pun), fantastic collaboration with @pgtimmune.bsky.social @asya-minervina.bsky.social and Phil Bradley.
some relevant recent publications from the group:
Protein structure modeling with symmetry-aware neural nets:
www.pnas.org/doi/10.1073/...
designing T-cell antigens w/ our protein models:
www.pnas.org/doi/10.1073/...
Design principles of T-cell responses:
arxiv.org/abs/2509.22997
check out our new work on the design principles underlying cytotoxic T-cell responses. how do trade-offs and cell economics shape immune decision making?
led by Obinna Ukogu and in collaboration with Grégoire Altan-Bonnet.
www.pnas.org/doi/10.1073/...
excited to announce that this January we are relocating to Yale to start a theory initiative at the Center for Systems and Engineering Immunology (CSEI): @yalecsei.bsky.social
looking to hire 2 postdocs to join us in this endeavor.
more details can be found here: sites.google.com/uw.edu/statp...
The Mahan postdoctoral fellowship offers 21 months of support to develop your own research with Fred Hutch computational biology faculty-- lots of excellent labs to choose from!
Apply: apply.interfolio.com/172697
Faculty: www.fredhutch.org/en/research...
Armita Nourmohammad
Armita Nourmohammad
Armita Nourmohammad
This started in 2019 as daydreamy PhD student musings with Tatsuya Araki. We're as excited as ever about germinal centers as a platform for experimental evolution.
Many thanks to PIs @victora.bsky.social @matsen.bsky.social, co-1st authors Ashni Vora and Tatsuya, and many other key collaborators!
Postdoctoral position:
In January 2026, we are relocating to Yale university to start a theory initiative at the Center for Systems and Engineering Immunology (CSEI).
We are looking for talented postd...
Antibody affinity maturation results from a somatic evolutionary process that takes
place in the germinal center. A “parallel replay” experiment on germinal center B
cells reveals the evolutionary for...
6th iteration of the Physics & Computation in Immunology meeting will be at Yale CSEI @yalecsei.bsky.social Sep 28–30. With Arup Chakraborty, Michael Lässig, @thearmita.bsky.social & Alex Walczak. Speakers from Princeton, Cambridge, Harvard, MSK, UCSF & more.
Free. 120 spots. Deadline Sep 6.
Frederick "Erick" Matsen
6th Workshop and Symposium
Physics and Computation in Immunology
28 – 30 September, 2026 | Yale University
