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Brian Jiménez-García
Brian Jiménez-García
CTO at Zymvol Biomodeling | ORCID 0000-0001-7786-2109
Geverifieerd e-mailadres voor zymvol.com - Homepage
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Structural biology in the clouds: the WeNMR-EOSC ecosystem
RV Honorato, PI Koukos, B Jiménez-García, A Tsaregorodtsev, M Verlato, ...
Frontiers in molecular biosciences 8, 729513, 2021
5252021
Updates to the integrated protein–protein interaction benchmarks: docking benchmark version 5 and affinity benchmark version 2
T Vreven, IH Moal, A Vangone, BG Pierce, PL Kastritis, M Torchala, ...
Journal of molecular biology 427 (19), 3031-3041, 2015
4682015
SKEMPI 2.0: an updated benchmark of changes in protein–protein binding energy, kinetics and thermodynamics upon mutation
J Jankauskaitė, B Jiménez-García, J Dapkūnas, J Fernández-Recio, ...
Bioinformatics 35 (3), 462-469, 2019
3102019
pyDockWEB: a web server for rigid-body protein–protein docking using electrostatics and desolvation scoring
B Jiménez-García, C Pons, J Fernández-Recio
Bioinformatics 29 (13), 1698-1699, 2013
3022013
Prediction of homoprotein and heteroprotein complexes by protein docking and template‐based modeling: a CASP‐CAPRI experiment
MF Lensink, S Velankar, A Kryshtafovych, SY Huang, ...
Proteins: Structure, Function, and Bioinformatics 84, 323-348, 2016
1682016
Blind prediction of homo‐and hetero‐protein complexes: The CASP13‐CAPRI experiment
MF Lensink, G Brysbaert, N Nadzirin, S Velankar, RAG Chaleil, T Gerguri, ...
Proteins: Structure, Function, and Bioinformatics 87 (12), 1200-1221, 2019
1272019
Community‐wide evaluation of methods for predicting the effect of mutations on protein–protein interactions
R Moretti, SJ Fleishman, R Agius, M Torchala, PA Bates, PL Kastritis, ...
Proteins: Structure, Function, and Bioinformatics 81 (11), 1980-1987, 2013
1142013
LightDock: a new multi-scale approach to protein–protein docking
B Jiménez-García, J Roel-Touris, M Romero-Durana, M Vidal, ...
Bioinformatics 34 (1), 49-55, 2018
1092018
Prediction of protein assemblies, the next frontier: The CASP14‐CAPRI experiment
MF Lensink, G Brysbaert, T Mauri, N Nadzirin, S Velankar, RAG Chaleil, ...
Proteins: Structure, Function, and Bioinformatics 89 (12), 1800-1823, 2021
1022021
Modeling antibody-antigen complexes by information-driven docking
F Ambrosetti, B Jiménez-García, J Roel-Touris, AMJJ Bonvin
Structure 28 (1), 119-129. e2, 2020
862020
pyDockSAXS: protein–protein complex structure by SAXS and computational docking
B Jiménez-García, C Pons, DI Svergun, P Bernadó, J Fernández-Recio
Nucleic acids research 43 (W1), W356-W361, 2015
752015
CCharPPI web server: computational characterization of protein–protein interactions from structure
IH Moal, B Jiménez-García, J Fernández-Recio
Bioinformatics 31 (1), 123-125, 2015
732015
The HADDOCK2. 4 web server for integrative modeling of biomolecular complexes
RV Honorato, ME Trellet, B Jiménez-García, JJ Schaarschmidt, M Giulini, ...
Nature protocols 19 (11), 3219-3241, 2024
652024
Blind prediction of interfacial water positions in CAPRI
MF Lensink, IH Moal, PA Bates, PL Kastritis, ASJ Melquiond, E Karaca, ...
Proteins: Structure, Function, and Bioinformatics 82 (4), 620-632, 2014
632014
A protein‐RNA docking benchmark (II): Extended set from experimental and homology modeling data
L Pérez‐Cano, B Jiménez‐García, J Fernández‐Recio
Proteins: Structure, Function, and Bioinformatics 80 (7), 1872-1882, 2012
632012
proABC-2: PRediction of AntiBody contacts v2 and its application to information-driven docking
F Ambrosetti, TH Olsen, PP Olimpieri, B Jiménez-García, E Milanetti, ...
Bioinformatics 36 (20), 5107-5108, 2020
472020
Impact of AlphaFold on structure prediction of protein complexes: The CASP15‐CAPRI experiment
MF Lensink, G Brysbaert, N Raouraoua, PA Bates, M Giulini, RV Honorato, ...
Proteins: Structure, Function, and Bioinformatics 91 (12), 1658-1683, 2023
442023
Integrative modeling of membrane-associated protein assemblies
J Roel-Touris, B Jiménez-García, AMJJ Bonvin
Nature communications 11 (1), 6210, 2020
392020
IRaPPA: information retrieval based integration of biophysical models for protein assembly selection
IH Moal, D Barradas-Bautista, B Jiménez-García, M Torchala, ...
Bioinformatics 33 (12), 1806-1813, 2017
372017
LightDock goes information-driven
J Roel-Touris, AMJJ Bonvin, B Jiménez-García
Bioinformatics 36 (3), 950-952, 2020
332020
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Artikelen 1–20