F. M. Ytreberg

Molecular modeling predicts novel antibody escape mutations in respiratory syncytial virus fusion glycoprotein

The paper uses molecular dynamics and FoldX to predict antibody escape mutations in RSV F protein and validates them experimentally.

EfgA is a conserved formaldehyde sensor that halts bacterial translation in response to elevated formaldehyde

This study identifies EfgA as a formaldehyde sensor in Methylorubrum extorquens that inhibits translation under formaldehyde stress, without enzymatic detoxification.

Implementing and assessing an alchemical method for calculating protein-protein binding free energy

The paper implements an alchemical method to calculate protein-protein binding free energy changes due to mutations and assesses its accuracy on small and large complexes.

Assessment of Software Methods for Estimating Protein-Protein Relative Binding Affinities

This study evaluates eight computational methods for predicting protein-protein relative binding affinities, finding some are accurate and efficient but less so for antibody-antigen complexes.

Predicting the Viability of Beta-Lactamase: How Folding and Binding Free Energies Correlate with Beta-Lactamase Fitness

This paper evaluates how well thermodynamic folding and binding free energies predict the fitness of beta-lactamase mutants using experimental data and computational models.

Expanding the watch list for potential Ebola virus antibody escape mutations

This paper expands a watch list of potential Ebola virus antibody escape mutations by including three additional monoclonal antibodies and identifying 127 mutations, three of which have been observed in humans.