Daniel Herschlag

Quantifying protein unfolding kinetics with a high-throughput microfluidic platform

This paper introduces SPARKfold, a microfluidic platform to measure protein unfolding rates for thousands of variants, validating its accuracy and demonstrating its utility in studying kinetic stability.

Rho ({rho}) Analysis to Dissect RNA Folding and Assembly Pathways

This paper introduces Rho analysis to study RNA folding pathways using mutations and isolated contacts, revealing multiple folding pathways and their modulation.

High-throughput biochemical phenotyping of SHP2 variants reveals the molecular basis of diseases and allosteric drug inhibition

This study uses high-throughput biochemical assays to analyze SHP2 variants, revealing that dysregulated autoinhibition drives disease and that allosteric inhibitors stabilize a partially active conformation.

Proteolytic activation of diverse antiviral defense modules in prokaryotes

The paper identifies proteolytic activation mechanisms in prokaryotic antiviral defense modules and shows their functional diversity and convergence with stress responses.

SEISMICgraph: a web-based tool for RNA structure data visualization

SEISMICgraph is a web-based tool for visualizing RNA structure data from chemical probing experiments, enabling comparison across sequences and conditions.

Physics-Grounded Evaluation to Guide Accurate Biomolecular Prediction

This paper evaluates current biomolecular structure prediction models using physics-based criteria, revealing widespread errors in capturing atomic interactions and conformational preferences.

Exploring the energetic and conformational properties of the sequence space connecting naturally occurring RNA tetraloop receptor motifs

This study uses high-throughput thermodynamic measurements to explore how sequence changes affect the binding properties of RNA tetraloop receptor motifs, revealing complex sequence-fitness landscapes.

uPIC-M: efficient and scalable preparation of clonal single mutant libraries for high-throughput protein biochemistry

The paper introduces uPIC-M, a method to efficiently create clonal single mutant libraries for high-throughput protein biochemistry, achieving high recovery rates and cost-effectiveness.