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Modeling Peptide–Protein Interactions by a Logo-Based Method: Application in Peptide–HLA Binding Predictions2024 Molecules article Biochemistry, Genetics and Molecular Biology vaccines and immunoinformatics approaches Open access
Irini Atanas Doytchinova, Mariyana Atanasova, Antonio Fernandez, Francisco Javier Moreno, Frits Koning, Ivan Dimitrov
6citations -
PMIpred: A physics-informed web server for quantitative Protein-Membrane Interaction prediction2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Machine Learning in Bioinformatics Open access
Niek van Hilten, Nino Verwei, Jeroen Methorst, Carsten Nase, Andrius Bernatavicius, Herre Jelger Risselada
4citations -
bacLIFE: a user-friendly computational workflow for genome analysis and prediction of lifestyle-associated genes in bacteria2024 Nature Communications article Biochemistry, Genetics and Molecular Biology Genomics and Phylogenetic Studies Open access
Guillermo Guerrero-Egido, Adrián Pintado, Kevin M. Bretscher, Luisa M. Arias-Giraldo, Joseph Nathaniel Paulson, Herman P. Spaink, +6 more
29citations -
Evidence of task-triggered retrieval of the previous response: a binding perspective on response-repetition benefits in task switching2023 Psychonomic Bulletin & Review article Neuroscience Neural and Behavioral Psychology Studies Open access
Elena Benini, Malte Möller, Iring Koch, Andrea M. Philipp, Ruyi Qiu, Susanne Mayr
3citations -
Surface Ig variable domain glycosylation affects autoantigen binding and acts as threshold for human autoreactive B cell activation2022 Science Advances article Biochemistry, Genetics and Molecular Biology Glycosylation and Glycoproteins Research Open access
Theresa Kissel, Changrong Ge, Lise Hafkenscheid, Joanneke C. Kwekkeboom, Linda M. Slot, Marco Cavallari, +18 more
77citations -
Molecular Modeling of Protein–Peptide Complexes Mimicking Factor Xa–Prothrombin Using AlphaFold-Multimer and Molecular Dynamics Simulations for Functional Prediction2026 Journal of Chemical Information and Modeling article Medicine Blood Coagulation and Thrombosis Mechanisms
Dejvid Veizaj, David Alonzo Poole III, Ka Lei Cheung, Jos V. Flier, Pieter H. Reitsma, Daniël Verhoef, +2 more
1citations -
Tuning the Binding Strength of Even and Uneven Hydrogen-Bonded Arrays with Remote Substituents2020 The Journal of Physical Chemistry A article Chemistry Crystallography and molecular interactions Open access
Stephanie C. C. van der Lubbe, Anissa Haim, Thor van Heesch, Célia Fonseca Guerra
16citations -
Geometrical benchmarking and analysis of redox potentials of copper(I/ II ) guanidine‐quinoline complexes: Comparison of semi‐empirical tight‐binding and DFT methods and the challenge of describing the entatic state (part III )2022 Journal of Computational Chemistry article Physics and Astronomy Advanced Chemical Physics Studies Open access
Lukas Raßpe-Lange, Alexander Hoffmann, Christoph Gertig, Joshua Heck, Kai O. Leonhard, Sonja Herres‐Pawlis
13citations -
Artificial Intelligence Approach for the Discovery of Autoantigen Recognition By B-Cell Lymphomas2023 Blood conference-abstract Biochemistry, Genetics and Molecular Biology vaccines and immunoinformatics approaches
David Medina, Julieta Sepúlveda-Yáñez, Diego Álvarez-Saravia, Roberto Uribe-Paredes, Hendrik Veelken, Marcelo A. Navarrete
3citations -
Predicting cell-type-specific exon inclusion in the human brain reveals more complex splicing mechanisms in neurons than glia2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology RNA Research and Splicing Open access
Lieke Michielsen, Justine Hsu, Anoushka Joglekar, Natan Belchikov, Marcel J. T. Reinders, Hagen Tilgner, +1 more
4citations -
Do Brain Extracellular Fluid Concentrations Predict PET ‐Inferred Receptor Occupancy in Human CNS ? A Mechanistic Model‐Based Analysis of Dopamine D2 Receptor Ligands2026 Clinical Pharmacology & Therapeutics article Neuroscience Neurotransmitter Receptor Influence on Behavior Open access
Divakar Budda, J. G. Coen van Hasselt, Elizabeth C. M. de Lange
0citations -
Hybrid MM/CG Webserver: Automatic Set Up of Molecular Mechanics/Coarse-Grained Simulations for Human G Protein-Coupled Receptor/Ligand Complexes2020 Frontiers in Molecular Biosciences article Biochemistry, Genetics and Molecular Biology Receptor Mechanisms and Signaling Open access
Jakob Schneider, Rui Pedro Ribeiro, Mercedes Alfonso‐Prieto, Paolo Carloni, Alejandro Giorgetti
9citations -
Fi-score: a novel approach to characterise protein topology and aid in drug discovery studies2020 Journal of Biomolecular Structure and Dynamics article Biochemistry, Genetics and Molecular Biology Protein Structure and Dynamics
Austė Kanapeckaitė, Claudia Beaurivage, MATTHEW J. HANCOCK, Erik Verschueren
3citations -
Identifying Novel Inhibitors for Hepatic Organic Anion Transporting Polypeptides by Machine Learning-Based Virtual Screening2022 Journal of Chemical Information and Modeling article Computer Science Computational Drug Discovery Methods Open access
Alzbeta Tuerkova, Brandon J. Bongers, Ulf Norinder, Orsolya Ungvári, Virág Székely, Andrey Tarnovskiy, +4 more
24citations