N. S. Hatzakis

Constitutive Endolysosomal Perforation in Neurons allows Induction of alpha-Synuclein Aggregation by Internalized Pre-Formed Fibrils

The paper shows that neurons have constitutive endolysosomal perforations enabling internalized alpha-synuclein fibrils to induce aggregation, and inhibiting PIKfyve kinase reduces this effect.

Deep learning assisted single particle tracking for automated correlation between diffusion and function

This paper introduces DeepSPT, a deep learning framework that automates the analysis of sub-cellular diffusion to infer functional information, achieving high accuracy in identifying endosomal structures during viral infections.

SEMORE: SEgmentation and MORphological fingErprinting by machine learning automates super-resolution data analysis.

SEMORE automates super-resolution data analysis by using machine learning to segment and quantify protein assemblies, enabling classification of aggregation pathways and nuclear pore complex geometry.

Dimensional Reduction for Single Molecule Imaging of DNA and Nucleosome Condensation by Polyamines, HP1α and Ki-67

This paper uses single-molecule imaging to study DNA and nucleosome condensation by polyamines, HP1α, and Ki-67, revealing kinetic differences in condensation and dissolution.

In vitro and in vivo immunogenicity assessment of protein aggregate characteristics

This study assesses the immunogenicity of human insulin aggregates with varying size, structure, and modifications, finding that flexible aggregates with altered secondary structure are most immunogenic.

Morphological integrity of insulin amyloid-like aggregates depends on preparation methods and post-production treatments

This study investigates how preparation methods and post-treatment affect the morphology and integrity of insulin amyloid-like aggregates.

Enhanced hexamerization of insulin via assembly pathway rerouting revealed by single particle studies

This study uses single molecule fluorescence microscopy to observe insulin self-assembly and disassembly, revealing new pathways and how additives influence oligomer formation.

A single vesicle fluorescence-bleaching assay for multi-parameter analysis of proteoliposomes by total internal reflection fluorescence microscopy

The paper introduces a fluorescence-bleaching assay using total internal reflection fluorescence microscopy to analyze multiple parameters of proteoliposomes at the single-vesicle level.

Inferring kinetic rate constants from single-molecule FRET trajectories - a blind benchmark of kinetic analysis tools

This study benchmarks eleven tools for inferring kinetic rate constants from smFRET trajectories using simulated and experimental data with varying challenges.

Direct Observation of Heterogeneous Formation of Amyloid Spherulites in Real-time by Super-resolution Microscopy

This study uses super-resolution microscopy to observe and quantify the heterogeneous growth of amyloid spherulites in real-time, revealing anisotropic growth pathways and energy landscapes.

Single particle combinatorial multiplexed liposome fusion mediated by DNA

The paper introduces SPARCLD, a method for parallelized, multi-step liposome fusion using DNA, enabling high-throughput combinatorial screening with minimal material.

Across kingdom biased CYP-mediated metabolism via small-molecule ligands docking on P450 oxidoreductase

The paper identifies ligands that dock on P450 oxidoreductase (POR) to bias its specificity towards CYP redox partners, revealing a mechanism for pathway-specific metabolism.

DeepFRET: Rapid and automated single molecule FRET data classification using deep learning

DeepFRET automates smFRET data classification using deep learning, achieving >95% accuracy and speed compared to human operators.

Label free fluorescence quantification of hydrolytic enzyme activity on native substrates reveal how lipase function depends on membrane curvature

This paper introduces a fluorescent assay to measure lipase activity on native substrates by detecting changes in membrane environment, revealing how membrane curvature and lid region mutations affect lipase function.