Sam Berry

Sam Berry

Postdoctoral Fellow

Wellcome Sanger Institute

About

I am a molecular biophysicist who studies the mutational landscapes of proteins with a focus on bridging high-throughput functional experiments with predictive and interpretable statistical models. The broad goal of my work is ultimately to turn biochemistry from a descriptive to a predictive science in which we can learn and understand protein functions directly from their sequences. I am especially interested in how substrate or ligand specificity is encoded in large families of homologous proteins and in how protein’s dynamic personalities shape their fitness landscapes.

Currently, I am a postdoctoral fellow in Ben Lehner’s group at the Sanger Institute, where I am working on several projects related to integrating experimental and computational methodologies to learn biochemical principles over vast sequence spaces. Previously, I was a PhD student in Biophysics at Harvard, where I worked with Rachelle Gaudet and Debora Marks on learning the sequence determinants of substrate selectivity using deep mutagenesis coupled with evolutionary sequence modeling.

Interests
  • Biochemistry
  • Structural biology
  • Evolution
  • Bioinformatics
Education
  • PhD in Biophysics, 2024

    Harvard University

  • B.S. in Molecular Biophysics and Biochemistry, 2019

    Yale University

Publications

(2026). Unified sampling framework and experimental benchmarking of sequence- and structure-based protein models. In bioRxiv.

DOI Preprint

(2026). Determinants of metal import and specificity in a bacterial transporter. In bioRxiv.

DOI Preprint

(2025). A structural window into the evolution of secondary transport mechanisms. In Nat Struct Mol Biol.

DOI Journal link

(2024). They all rock: A systematic comparison of conformational movements in LeuT-fold transporters. In Structure.

DOI Journal link

(2024). GPR161 structure uncovers the redundant role of sterol-regulated ciliary cAMP signaling in the Hedgehog pathway. In Nat Struct Mol Biol.

DOI Journal link

(2023). High-resolution structures map the metal import pathway in an Nramp transporter. In eLife.

DOI Journal link PDF

(2023). Coordination of bacterial cell wall and outer membrane biosynthesis. In Nature.

Journal link PDF

(2019). HOPS-dependent endosomal fusion required for efficient cytosolic delivery of therapeutic peptides and small proteins. In PNAS.

DOI Journal link

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