Rémi Monasson - researchr alias

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Viewing Publication 1 - 29 from 29

2023

Computational design of novel Cas9 PAM-interacting domains using evolution-based modelling and structural quality assessmentCyril Malbranke, William Rostain, Florence Depardieu, Simona Cocco, Rémi Monasson, David Bikard. ploscb, 19(11), November 2023. [doi]

Infer global, predict local: Quantity-relevance trade-off in protein fitness predictions from sequence dataLorenzo Posani, Francesca Rizzato, Rémi Monasson, Simona Cocco. ploscb, 19(10), October 2023. [doi]

2022

Generative and interpretable machine learning for aptamer design and analysis of in vitro sequence selectionAndrea Di Gioacchino, Jonah Procyk, Marco Molari, John S. Schreck, Yu Zhou, Yan Liu, Rémi Monasson, Simona Cocco, Petr Sulc. ploscb, 18(9):1010561, September 2022. [doi]

2021

Connections to Statistical PhysicsFabrizio Altarelli, Rémi Monasson, Guilhem Semerjian, Francesco Zamponi. In Armin Biere, Marijn Heule, Hans van Maaren, Toby Walsh, editors, Handbook of Satisfiability - Second Edition. Volume 336 of Frontiers in Artificial Intelligence and Applications, pages 859-901, IOS Press, 2021. [doi]

Probing T-cell response by sequence-based probabilistic modelingBarbara Bravi, Vinod P. Balachandran, Benjamin D. Greenbaum, Aleksandra M. Walczak, Thierry Mora, Rémi Monasson, Simona Cocco. ploscb, 17(9), 2021. [doi]

Low-Dimensional Manifolds Support Multiplexed Integrations in Recurrent Neural NetworksArnaud Fanthomme, Rémi Monasson. neco, 33(4):1063-1112, 2021. [doi]

Improving sequence-based modeling of protein families using secondary-structure quality assessmentCyril Malbranke, David Bikard, Simona Cocco, Rémi Monasson. bioinformatics, 37(22):4083-4090, November 2021. [doi]

Parameters and determinants of responses to selection in antibody librariesSteven Schulz, Sebastien Boyer, Matteo Smerlak, Simona Cocco, Rémi Monasson, Clément Nizak, Olivier Rivoire. ploscb, 17(3), 2021. [doi]

2019

Can Grid Cell Ensembles Represent Multiple Spaces?Davide Spalla, Alexis M. Dubreuil, Sophie Rosay, Rémi Monasson, Alessandro Treves. neco, 31(12):2324-2347, 2019. [doi]

Learning Compositional Representations of Interacting Systems with Restricted Boltzmann Machines: Comparative Study of Lattice ProteinsJérôme Tubiana, Simona Cocco, Rémi Monasson. neco, 31(8):1671-1717, 2019. [doi]

2018

Integration and multiplexing of positional and contextual information by the hippocampal networkLorenzo Posani, Simona Cocco, Rémi Monasson. ploscb, 14(8), 2018. [doi]

2017

Functional connectivity models for decoding of spatial representations from hippocampal CA1 recordingsLorenzo Posani, Simona Cocco, Karel Jezek, Rémi Monasson. jcns, 43(1):17-33, 2017. [doi]

2016

Benchmarking Inverse Statistical Approaches for Protein Structure and Design with Exactly Solvable ModelsHugo Jacquin, Amy Gilson, Eugene I. Shakhnovich, Simona Cocco, Rémi Monasson. ploscb, 12(5), 2016. [doi]

Inference of principal components of noisy correlation matrices with prior informationRémi Monasson. acssc 2016: 95-99 [doi]

Neural assemblies revealed by inferred connectivity-based models of prefrontal cortex recordingsGaia Tavoni, Simona Cocco, Rémi Monasson. jcns, 41(3):269-293, 2016. [doi]

2013

From Principal Component to Direct Coupling Analysis of Coevolution in Proteins: Low-Eigenvalue Modes are Needed for Structure PredictionSimona Cocco, Rémi Monasson, Martin Weigt. ploscb, 9(8), 2013. [doi]

2011

Fast inference of interactions in assemblies of stochastic integrate-and-fire neurons from spike recordingsRémi Monasson, Simona Cocco. jcns, 31(2):199-227, 2011. [doi]

2006

Analyzing Search Algorithms with Physical MethodsSimona Cocco, Rémi Monasson, Andrea Montanari, Guilhem Semerjian. In Allon G. Percus, Gabriel Istrate, Cristopher Moore, editors, Computational Complexity and Statistical Physics. Studies in the sciences of complexity, pages 63-106, Oxford University Press, 2006.

2005

Restarts and exponential acceleration of the Davis-Putnam-Loveland-Logemann algorithm: A large deviation analysis of the generalized unit clause heuristic for random 3-SATSimona Cocco, Rémi Monasson. AMAI, 43(1):153-172, 2005. [doi]

A Generating Function Method for the Average-Case Analysis of DPLLRémi Monasson. approx 2005: 402-413 [doi]

2004

Heuristic average-case analysis of the backtrack resolution of random 3-satisfiability instancesSimona Cocco, Rémi Monasson. TCS, 320(2-3):345-372, 2004. [doi]

2003

A Study of Pure Random Walk on Random Satisfiability Problems with Physical MethodsGuilhem Semerjian, Rémi Monasson. sat 2004: 120-134 [doi]

2001

Statistical physics analysis of the backtrack resolution of random 3-SAT instancesSimona Cocco, Rémi Monasson. endm, 9:36-47, 2001. [doi]

EditorialOlivier Dubois, Rémi Monasson, Bart Selman, Riccardo Zecchina. TCS, 265(1-2):1, 2001. [doi]

Statistical mechanics methods and phase transitions in optimization problemsOlivier C. Martin, Rémi Monasson, Riccardo Zecchina. TCS, 265(1-2):3-67, 2001. [doi]

1999

2+p-SAT: Relation of typical-case complexity to the nature of the phase transitionRémi Monasson, Riccardo Zecchina, Scott Kirkpatrick, Bart Selman, Lidror Troyansky. rsa, 15(3-4):414-435, 1999.

1994

Letter to the Editor: A Storage Algorithm for Two-Layered Neural NetworksRémi Monasson. IJNS, 5(2):153-156, 1994. [doi]

1992

Memory Retrieval in Optimal SubspacesGuido Boffetta, Rémi Monasson, Riccardo Zecchina. IJNS, 3(Supplement):71-77, 1992. [doi]

1991

Generalization Error and Dynamical Effects in a Two-Dimensional Patches DetectorI. Kocher, Rémi Monasson. IJNS, 2(1-2):115-124, 1991. [doi]

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