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Barbara Bravi
Tytuł
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Neoantigen quality predicts immunoediting in survivors of pancreatic cancer
M Łuksza, ZM Sethna, LA Rojas, J Lihm, B Bravi, Y Elhanati, K Soares, ...
Nature 606 (7913), 389-395, 2022
1092022
Benchmarking solutions to the T-cell receptor epitope prediction problem: IMMREP22 workshop report
P Meysman, J Barton, B Bravi, L Cohen-Lavi, V Karnaukhov, E Lilleskov, ...
ImmunoInformatics 9, 100024, 2023
482023
RBM-MHC: A Semi-Supervised Machine-Learning Method for Sample-Specific Prediction of Antigen Presentation by HLA-I Alleles
B Bravi, J Tubiana, S Cocco, R Monasson, T Mora, AM Walczak
Cell systems 12 (2), 195-202. e9, 2021
352021
The unconventionality of nature: biology, from noise to functional randomness
B Bravi, G Longo
Unconventional Computation and Natural Computation: 14th International …, 2015
302015
Extended Plefka expansion for stochastic dynamics
B Bravi, P Sollich, M Opper
Journal of Physics A: Mathematical and Theoretical 49 (19), 194003, 2016
192016
Direct coupling analysis of epistasis in allosteric materials
B Bravi, R Ravasio, C Brito, M Wyart
PLOS Computational Biology 16 (3), e1007630, 2020
182020
Statistical physics approaches to subnetwork dynamics in biochemical systems
B Bravi, P Sollich
Physical biology 14 (4), 045010, 2017
162017
Probing T-cell response by sequence-based probabilistic modeling
B Bravi, VP Balachandran, BD Greenbaum, AM Walczak, T Mora, ...
PLOS Computational Biology 17 (9), e1009297, 2021
142021
Inference for dynamics of continuous variables: the Extended Plefka Expansion with hidden nodes
B Bravi, P Sollich
Journal of Statistical Mechanics: Theory and Experiment 2017 (6), 063404, 2017
132017
Inferring hidden states in Langevin dynamics on large networks: Average case performance
B Bravi, M Opper, P Sollich
Physical Review E 95 (1), 012122, 2017
92017
Responses to auxin signals: an operating principle for dynamical sensitivity yet high resilience
S Grigolon, B Bravi, OC Martin
Royal Society open science 5 (1), 172098, 2018
82018
A transfer-learning approach to predict antigen immunogenicity and T-cell receptor specificity
B Bravi, A Di Gioacchino, J Fernandez-de-Cossio-Diaz, AM Walczak, ...
Elife 12, e85126, 2023
42023
Systematic model reduction captures the dynamics of extrinsic noise in biochemical subnetworks
B Bravi, KJ Rubin, P Sollich
J. Chem. Phys. 153, 025101, 2020
42020
Path integral approaches to subnetwork description and inference
B Bravi
King's College London, 2016
42016
Learning the differences: a transfer-learning approach to predict antigen immunogenicity and T-cell receptor specificity
B Bravi, A Di Gioacchino, J Fernandez-de-Cossio-Diaz, AM Walczak, ...
bioRxiv, 2022.12. 06.519259, 2022
32022
Development and use of machine learning algorithms in vaccine target selection
B Bravi
npj Vaccines 9 (1), 15, 2024
22024
Critical scaling in hidden state inference for linear Langevin dynamics
B Bravi, P Sollich
Journal of Statistical Mechanics: Theory and Experiment 2017 (6), 063504, 2017
22017
Wavelet-Based Density Estimation for Persistent Homology
K Häberle, B Bravi, A Monod
SIAM/ASA Journal on Uncertainty Quantification 12 (2), 347-376, 2024
12024
ANTIPASTI: interpretable prediction of antibody binding affinity exploiting Normal Modes and Deep Learning
K Michalewicz, M Barahona, B Bravi
bioRxiv, 2023.12. 22.572853, 2023
2023
Modeling antigen presentation and immune recognition with Restricted Boltzmann Machines
B Bravi, S Cocco, R Monasson, T Mora, A Walczak
APS March Meeting Abstracts 2021, V13. 005, 2021
2021
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