Simoncini David
Simoncini David
Université de Toulouse I Capitole
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Cited by
Cited by
Computational design of a self-assembling symmetrical β-propeller protein
ARD Voet, H Noguchi, C Addy, D Simoncini, D Terada, S Unzai, SY Park, ...
Proceedings of the National Academy of Sciences 111 (42), 15102-15107, 2014
Guaranteed discrete energy optimization on large protein design problems
D Simoncini, D Allouche, S De Givry, C Delmas, S Barbe, T Schiex
Journal of chemical theory and computation 11 (12), 5980-5989, 2015
A probabilistic fragment-based protein structure prediction algorithm
D Simoncini, F Berenger, R Shrestha, KYJ Zhang
PloS one 7 (7), e38799, 2012
Computational design of symmetrical eight-bladed β-propeller proteins
H Noguchi, C Addy, D Simoncini, S Wouters, B Mylemans, L Van Meervelt, ...
IUCrJ 6 (1), 46-55, 2019
Guaranteed weighted counting for affinity computation: Beyond determinism and structure
C Viricel, D Simoncini, S Barbe, T Schiex
Principles and Practice of Constraint Programming: 22nd International …, 2016
Efficient sampling in fragment-based protein structure prediction using an estimation of distribution algorithm
D Simoncini, KYJ Zhang
PLoS One 8 (7), e68954, 2013
Durandal: fast exact clustering of protein decoys
F Berenger, R Shrestha, Y Zhou, D Simoncini, KYJ Zhang
Journal of computational chemistry 33 (4), 471-474, 2012
Balancing exploration and exploitation in population‐based sampling improves fragment‐based de novo protein structure prediction
D Simoncini, T Schiex, KYJ Zhang
Proteins: Structure, Function, and Bioinformatics 85 (5), 852-858, 2017
On the influence of selection operators on performances in cellular genetic algorithms
D Simoncini, P Collard, S Verel, M Clergue
2007 IEEE Congress on Evolutionary Computation, 4706-4713, 2007
Anisotropic selection in cellular genetic algorithms
D Simoncini, S Verel, P Collard, M Clergue
Proceedings of the 8th annual conference on Genetic and evolutionary …, 2006
Positive multistate protein design
J Vucinic, D Simoncini, M Ruffini, S Barbe, T Schiex
Bioinformatics 36 (1), 122-130, 2020
Fitness landscape analysis around the optimum in computational protein design
D Simoncini, S Barbe, T Schiex, S Verel
Proceedings of the Genetic and Evolutionary Computation Conference, 355-362, 2018
Quality assessment of predicted protein models using energies calculated by the fragment molecular orbital method
D Simoncini, H Nakata, K Ogata, S Nakamura, KYJ Zhang
Molecular Informatics 34 (2‐3), 97-104, 2015
Evolution-inspired computational design of symmetric proteins
ARD Voet, D Simoncini, JRH Tame, KYJ Zhang
Computational Protein Design, 309-322, 2017
Approximate counting with deterministic guarantees for affinity computation
C Viricel, D Simoncini, D Allouche, S De Givry, S Barbe, T Schiex
Modelling, Computation and Optimization in Information Systems and …, 2015
Centric selection: a way to tune the exploration/exploitation trade-off
D Simoncini, S Verel, P Collard, M Clergue
Proceedings of the 11th Annual conference on Genetic and evolutionary …, 2009
Error-estimation-guided rebuilding of de novo models increases the success rate of ab initio phasing
R Shrestha, D Simoncini, KYJ Zhang
Acta Crystallographica Section D: Biological Crystallography 68 (11), 1522-1534, 2012
From cells to islands: An unified model of cellular parallel genetic algorithms
D Simoncini, P Collard, S Verel, M Clergue
Cellular Automata: 7th International Conference on Cellular Automata, for …, 2006
Seven amino acid types suffice to create the core fold of RNA polymerase
S Yagi, AK Padhi, J Vucinic, S Barbe, T Schiex, R Nakagawa, D Simoncini, ...
Journal of the American Chemical Society 143 (39), 15998-16006, 2021
A structural homology approach for computational protein design with flexible backbone
D Simoncini, KYJ Zhang, T Schiex, S Barbe
Bioinformatics 35 (14), 2418-2426, 2019
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