2020

1   Quantitative modeling of the effect of antigen dosage on B-cell affinity distributions in maturating germinal centers
 Marco Molari, Klaus Eyer, Jean Baudry, Simona Cocco, Remi Monasson
eLife
2   Spectrum of multispace Euclidean random matrices
 Aldo Battista, Remi Monasson
Physical Review E
3   Exploiting B Cell Receptor Analyses to Inform on HIV-1 Vaccination Strategies
 Christoph Kreer, Henning Gruell, Thierry Mora, Aleksandra Walczak, Florian Klein
Vaccines
4   Primary and secondary anti-viral response captured by the dynamics and phenotype of individual T cell clones
 Anastasia Minervina, Mikhail Pogorelyy, Ekaterina Komech, Vadim Karnaukhov, Petra Bacher, Elisa Rosati, Andre Franke, Dmitriy Chudakov, Ilgar Mamedov, Yuri Lebedev, Thierry Mora, Aleksandra Walczak
eLife
5   Capacity-Resolution Trade-Off in the Optimal Learning of Multiple Low-Dimensional Manifolds by Attractor Neural Networks
 Aldo Battista, Rémi Monasson
Physical Review Letters
6   Inference of compressed Potts graphical models
 Francesca Rizzato, Alice Coucke, Eleonora de Leonardis, J. P. Barton, Jérôme Tubiana, Remi Monasson, Simona Cocco
Physical Review E
7   Quantitative Immunology for Physicists
 Grégoire Altan-Bonnet, Thierry Mora, Aleksandra M. Walczak
Physics Reports
8   Inferring the immune response from repertoire sequencing
 Maximilian Puelma Touzel, Aleksandra Walczak, Thierry Mora
PLoS Computational Biology
9   Gaussian Closure Scheme in the Quasi--Linkage Equilibrium Regime of Evolving Genome Populations
 Eugenio Mauri, Simona Cocco, Rémi Monasson
EPL - Europhysics Letters

2019

10   How many different clonotypes do immune repertoires contain?
 Thierry Mora, Aleksandra Walczak
Current Opinion in Systems Biology
11   Can Grid Cell Ensembles Represent Multiple Spaces?
 Davide Spalla, Alexis Dubreuil, Sophie Rosay, Remi Monasson, Alessandro Treves
Neural Computation
12   Adaptive cluster expansion for Ising spin models
 Simona Cocco, Giancarlo Croce, Francesco Zamponi
European Physical Journal B: Condensed Matter and Complex Systems
13   Fierce Selection and Interference in B-Cell Repertoire Response to Chronic HIV-1
 Armita Nourmohammad, Jakub Otwinowski, Marta Łuksza, Thierry Mora, Aleksandra Walczak
Molecular Biology and Evolution
14   Multi-Lineage Evolution in Viral Populations Driven by Host Immune Systems
 Jacopo Marchi, Michael Lässig, Thierry Mora, Aleksandra M. Walczak
Pathogens
15   OLGA: fast computation of generation probabilities of B- and T-cell receptor amino acid sequences and motifs
 Zachary Sethna, Yuval Elhanati, Curtis Callan, Aleksandra M. Walczak, Thierry Mora
Bioinformatics
16   Physique statistique et apprentissage machine : une méthode et trois exemples
 Remi Monasson
17   Size and structure of the sequence space of repeat proteins
 Jacopo Marchi, Ezequiel Galpern, Rocío Espada, Diego Ferreiro, Aleksandra M. Walczak, Thierry Mora
PLoS Computational Biology
18   Learning Compositional Representations of Interacting Systems with Restricted Boltzmann Machines: Comparative Study of Lattice Proteins
 Jérôme Tubiana, Simona Cocco, Remi Monasson
Neural Computation
19   How a well-adapting immune system remembers
 Andreas Mayer, Vijay Balasubramanian, Aleksandra M. Walczak, Thierry Mora
Proceedings of the National Academy of Sciences of the United States of America
20   Learning protein constitutive motifs from sequence data
 Jérôme Tubiana, Simona Cocco, Remi Monasson
eLife
21   Modeling the Correlated Activity of Neural Populations: A Review
 Christophe Gardella, Olivier Marre, Thierry Mora
Neural Computation
22   Receptor crosstalk improves concentration sensing of multiple ligands
 Martín Carballo-Pacheco, Jonathan Desponds, Tatyana Gavrilchenko, Andreas Mayer, Roshan Prizak, Gautam Reddy, Ilya Nemenman, Thierry Mora
Physical Review E
23   Cost and benefits of clustered regularly interspaced short palindromic repeats spacer acquisition
 Serena Bradde, Thierry Mora, Aleksandra Walczak
Philosophical Transactions of the Royal Society B: Biological Sciences
24   Epistasis in a Fitness Landscape Defined by Antibody-Antigen Binding Free Energy
 Rhys Adams, Justin Kinney, Aleksandra Walczak, Thierry Mora
Cell Systems
25   Genesis of the αβ T-cell receptor
 Thomas Dupic, Quentin Marcou, Aleksandra M. Walczak, Thierry Mora
PLoS Computational Biology
26   Detecting T cell receptors involved in immune responses from single repertoire snapshots
 Mikhail Pogorelyy, Anastasia Minervina, Mikhail Shugay, Dmitriy Chudakov, Yuri Lebedev, Thierry Mora, Aleksandra Walczak
PLoS Biology
26
Publications
2
Années