P. A. Robert

Weakly supervised identification and generation of adaptive immune receptor sequences associated with immune disease status

The paper develops AIRRTM, a generative model that identifies and generates disease-associated adaptive immune receptor sequences using only repertoire-level immune status data.

High-resolution mapping of cell-cycle dynamics during T-cell development and regeneration in vivo

This study maps cell-cycle dynamics during T-cell development and regeneration using in vivo labeling and modeling, revealing phase adjustments that maintain homeostasis.

In silico proof of principle of machine learning-based antibody design at unconstrained scale

This paper demonstrates that deep generative models can design high-affinity, developable antibodies at scale using synthetic data and transfer learning.

Unconstrained generation of synthetic antibody-antigen structures to guide machine learning methodology for real-world antibody specificity prediction

The paper introduces Absolut!, a software suite generating synthetic antibody-antigen structures to benchmark machine learning methods for antibody specificity prediction.

Individualized VDJ recombination predisposes the available Ig sequence space

The paper shows that VDJ recombination rules vary between individuals, leading to individual-specific Ig sequence spaces.

Influenza A virus-induced thymus atrophy differentially affects dynamics of conventional and regulatory T cell development

This study investigates how influenza A virus-induced thymus atrophy affects Treg cell development and shows a relative increase in tTreg cells with reduced TCR diversity.

Intrinsic defects in lymph node stromal cells underpin poor germinal center responses during aging

This study shows that aging impairs lymph node stromal cells' ability to respond to vaccination, limiting germinal center formation and antibody production.

A compact vocabulary of paratope-epitope interactions enables predictability of antibody-antigen binding

The paper identifies a compact vocabulary of paratope-epitope interaction motifs that enables machine learning prediction of antibody-antigen binding.

In silico characterization of mechanisms positioning costimulatory and checkpoint complexes in immune synapses

The paper uses computer simulations to reveal how immunoglobulin superfamily adhesion and costimulatory/checkpoint complexes are localized in immunological synapses.