A. Hacisuleyman

The paper quantifies information transfer between protein residues using theoretical models and experimental data, finding transfer rates up to megabits per second.

This study uses molecular dynamics simulations to analyze how three nanobodies bind to SARS-CoV-2 Spike RBD and affect ACE2 binding, revealing differences in their neutralizing mechanisms against variants.

This study develops a Dynamic Gaussian Network Model to analyze protein perturbation and response, revealing synchronous and asynchronous dynamics and their role in allostery.

The paper analyzes how mutations in nanobody CDRs affect protein dynamics using a computational model, identifying residues with different perturbation responses.

This paper introduces ModiBodies, an algorithm that modifies nanobodies to enhance their antigen binding affinity and specificity through computational mutation of CDR domains.

The paper introduces a method to generate allosteric communication landscapes in proteins using entropy transfer and Gaussian Network Models, showing information transfer occurs through multiple pathways and causality is essential for accurate predictions.