9 papers
Paraplume: A fast and accurate paratope prediction method provides insights into repertoire-scale binding dynamics
Gabriel Athènes, Adam Woolfe, Thierry Mora +1
The specific region of an antibody responsible for binding to an antigen, known as the paratope, is essential for immune recognition. Accurate identification of this small yet crit…
Dynamics of memory B cells and plasmablasts in healthy individuals
Andrea Mazzolini, Aleksandra M. Walczak, Thierry Mora
Our adaptive immune system relies on the persistence over long times of a diverse set of antigen-experienced B cells to encode our memories of past infections and to protect us aga…
Theoretical limits for sensing through phase separation
Henry Alston, Mason Rouches, Arvind Murugan +2
Biomolecular condensates form on timescales of seconds in cells upon environmental or compositional changes. Condensate formation is thus argued to act as a mechanism for sensing s…
Fast decisions with biophysically constrained gene promoter architectures
Tarek Tohme, Massimo Vergassola, Thierry Mora +1
Cells integrate signals and make decisions about their future state in short amounts of time. A lot of theoretical effort has gone into asking how to best design gene regulatory ci…
Integrating computational detection and experimental validation for rapid GFRAL-specific antibody discovery
Maria Francesca Abbate, Pierre Toxe, Nicolas Maestrali +5
The identification and validation of therapeutic antibodies is critical for developing effective treatments for many diseases. We present a computational approach for identifying a…
Learning via mechanosensitivity and activity in cytoskeletal networks
Deb S. Banerjee, Martin J. Falk, Margaret L Gardel +3
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 perturba…