Rafael C Bernardi
Auburn University
H-index: 22
North America-United States
Top articles of Rafael C Bernardi
Title | Journal | Author(s) | Publication Date |
|---|---|---|---|
Integrating Dynamic Network Analysis with AI for Enhanced Epitope Prediction in PD-L1: Affibody Interactions | bioRxiv | Diego EB Gomes Byeongseon Yang Rosario Vanella Michael A Nash Rafael C Bernardi | 2024 |
Single-molecule force stability of the SARS-CoV-2–ACE2 interface in variants-of-concern | Nature Nanotechnology | Magnus S Bauer Sophia Gruber Adina Hausch Marcelo CR Melo Priscila SFC Gomes | 2023/11/27 |
Deciphering interface mechanics with protein dynamics and AI | Biophysical Journal | Marcelo Cardoso dos Reis Melo Rafael C Bernardi | 2024/2/8 |
Deciphering PD-L1: Affibody complex: A computational endeavour to understanding protein-protein interactions in cancer therapy | Biophysical Journal | Diego E Barreto Gomes Byeongseon Yang Michael A Nash Rafael C Bernardi | 2024/2/8 |
May the force be with you: the role of hyper-mechanostability of the bone sialoprotein binding protein during early stages of Staphylococci infections | Frontiers in Chemistry | Priscila SFC Gomes Meredith Forrester Margaret Pace Diego EB Gomes Rafael C Bernardi | 2023 |
Molecular Origins of Force-Dependent Protein Complex Stabilization during Bacterial Infections | Journal of the American Chemical Society | Marcelo CR Melo Diego EB Gomes Rafael C Bernardi | 2023 |
VMD as a platform for interactive small molecule preparation and visualization in quantum and classical simulations | Journal of Chemical Information and Modeling | Mariano Spivak John E Stone João Ribeiro Jan Saam Peter L Freddolino | 2023/7/28 |
Fostering discoveries in the era of exascale computing: How the next generation of supercomputers empowers computational and experimental biophysics alike | Marcelo CR Melo Rafael C Bernardi | 2023/7/25 | |
Cybershuttle: An End-to-End Cyberinfrastructure Continuum to Accelerate Discovery in Science and Engineering | Suresh Marru Marlon Pierce Beth Plale Sudhakar Pamidighantam Dimuthu Wannipurage | 2023/7/23 | |
Deciphering molecular mechanisms stabilizing the reovirus-binding complex | Proceedings of the National Academy of Sciences | Rita dos Santos Natividade Melanie Koehler Priscila SFC Gomes Joshua D Simpson Sydni Caet Smith | 2023/5/23 |
A tethered ligand assay to probe SARS-CoV-2: ACE2 interactions | Proceedings of the National Academy of Sciences | Magnus S Bauer Sophia Gruber Adina Hausch Priscila SFC Gomes Lukas F Milles | 2022/4/5 |
Protein structure prediction in the era of AI: challenges and limitations when applying to in-silico force spectroscopy | Frontiers in Bioinformatics | Priscila SFC Gomes Diego EB Gomes Rafael C Bernardi | 2022/10/7 |
Bridging the gap between in vitro and in silico single-molecule force spectroscopy | bioRxiv | Diego EB Gomes Marcelo CR Melo Priscila SFC Gomes Rafael C Bernardi | 2022/7/15 |
QwikMD 2.0: bridging the gap between sequence, structure, and protein function | Biophysical Journal | Diego E Barreto Gomes Priscila S Gomes Rafael C Bernardi | 2022/2/11 |
Streptavidin/biotin: Tethering geometry defines unbinding mechanics | Science advances | Steffen M Sedlak Leonard C Schendel Hermann E Gaub Rafael C Bernardi | 2020/3/25 |
Thermophilic degradation of hemicellulose, a critical feedstock in the production of bioenergy and other value-added products | Isaac Cann Gabriel V Pereira Ahmed M Abdel-Hamid Heejin Kim Daniel Wefers | 2020/3/18 | |
Generalized correlation-based dynamical network analysis: a new high-performance approach for identifying allosteric communications in molecular dynamics trajectories | The Journal of Chemical Physics | Marcelo CR Melo Rafael C Bernardi Cesar De La Fuente-Nunez Zaida Luthey-Schulten | 2020/10/7 |
NAMD as a tool for in silico force spectroscopy | Biophysical Journal | Rafael C Bernardi Lukas F Milles Hermann E Gaub | 2020/2/7 |
High Force Catch Bond Mechanism of Bacterial Adhesion in the Human Gut | Nature Communications | Zhaowei Liu Haipei Liu Andrés M Vera Rafael C Bernardi Philip Tinnefeld | 2020/8/28 |
Scalable molecular dynamics on CPU and GPU architectures with NAMD | The Journal of Chemical Physics | James C Phillips David J Hardy Julio DC Maia John E Stone João V Ribeiro | 2020/7/28 |
Co-Authors
