2019

1   Dissipation in Non-Steady State Regulatory Circuits
 Paulina Szymańska-Rożek, Dario Villamaina, Jacek Miȩkisz, Aleksandra Walczak
Entropy
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2   Can Grid Cell Ensembles Represent Multiple Spaces?
 Davide Spalla, Alexis Dubreuil, Sophie Rosay, Remi Monasson, Alessandro Treves
Neural Computation
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3   How many different clonotypes do immune repertoires contain?
 Thierry Mora, Aleksandra Walczak
Current Opinion in Systems Biology
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4   Physical Limit to Concentration Sensing in a Changing Environment
 Thierry Mora, Ilya Nemenman
Physical Review Letters
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5   Adaptive cluster expansion for Ising spin models
 Simona Cocco, Giancarlo Croce, Francesco Zamponi
The European Physical Journal B: Condensed Matter and Complex Systems
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6   OLGA: fast computation of generation probabilities of B- and T-cell receptor amino acid sequences and motifs
 Zachary Sethna, Yuval Elhanati, Curtis G Callan, Aleksandra M. Walczak, Thierry Mora
Bioinformatics
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7   Physique statistique et apprentissage machine : une méthode et trois exemples
 Remi Monasson
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8   Size and structure of the sequence space of repeat proteins
 Jacopo Marchi, Ezequiel A Galpern, Rocío Espada, Diego U Ferreiro, Aleksandra M. Walczak, Thierry Mora
PLoS Computational Biology
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9   Learning Compositional Representations of Interacting Systems with Restricted Boltzmann Machines: Comparative Study of Lattice Proteins
 Jérôme Tubiana, Simona Cocco, Remi Monasson
Neural Computation
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10   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
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11   Modeling the Correlated Activity of Neural Populations: A Review
 Christophe Gardella, Olivier Marre, Thierry Mora
Neural Computation
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12   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
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13   Learning protein constitutive motifs from sequence data
 Jérôme Tubiana, Simona Cocco, Remi Monasson
eLife
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14   Multi-Lineage Evolution in Viral Populations Driven by Host Immune Systems
 Jacopo Marchi, Michael Lässig, Thierry Mora, Aleksandra M. Walczak
Pathogens
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15   Fierce Selection and Interference in B-Cell Repertoire Response to Chronic HIV-1
 Armita Nourmohammad, Jakub Otwinowski, Marta Łuksza, Thierry Mora, Aleksandra M Walczak
Molecular Biology and Evolution
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16   Genesis of the αβ T-cell receptor
 Thomas Dupic, Quentin Marcou, Aleksandra M. Walczak, Thierry Mora
PLoS Computational Biology
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17   Three-point functions in the fully packed loop model on the honeycomb lattice
 Thomas Dupic, Benoît Estienne, Yacine Ikhlef
Journal of Physics A: Mathematical and Theoretical
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18   Detecting T cell receptors involved in immune responses from single repertoire snapshots
 Mikhail V Pogorelyy, Anastasia Minervina, Mikhail Shugay, Dmitriy Chudakov, Yuri Lebedev, Thierry Mora, Aleksandra M Walczak
PLoS Biology
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19   Epistasis in a Fitness Landscape Defined by Antibody-Antigen Binding Free Energy
 Rhys Adams, Justin Kinney, Aleksandra M Walczak, Thierry Mora
Cell Systems
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20   Cost and benefits of clustered regularly interspaced short palindromic repeats spacer acquisition
 Serena Bradde, Thierry Mora, Aleksandra M Walczak
Philosophical Transactions of the Royal Society B: Biological Sciences
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Publications
2019

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