Advanced Fluorescence Microscopy Techniques

How flat is your sample? An opportunistic survey of 3D tilt in public fluorescence microscopy data

The paper introduces FlatStat, a tool to estimate sample tilt from 3D fluorescence stacks, and applies it to public data to assess tilt variability across projects.

Reflected Inline Detection in Epi Oblique Plane Microscopy

The paper introduces RIDE-OPM, a simplified OPM design that improves imaging stability and flexibility for long-term biological imaging.

Photon-Resolved Excitation-Denoised (PRED) Three-Photon Imaging Improves Detection of Neuronal Activity in Awake and Behaving Mice

The paper improves three-photon imaging for neuronal activity detection in behaving mice by reducing noise and increasing imaging speed.

Dynamic visualization of physiological CaMKII activity using sensitive FRET biosensors

The paper develops sensitive FRET biosensors to visualize CaMKII activity dynamics in living cells and demonstrates their use in cultured and primary cells, including neurons and cardiomyocytes.

A Multimodal Adaptive Optical Microscope For In Vivo Imaging from Molecules to Organisms

The paper introduces MOSAIC, a multimodal adaptive optical microscope that enables non-invasive imaging across biological scales in live specimens.

SurpHer: a genetically encoded ratiometric sensor for dynamic extracellular pH imaging

The paper develops SurpHer, a genetically encoded ratiometric pH sensor, and demonstrates its use in imaging extracellular pH dynamics in human cells and tumor microenvironments.

A pilot study for whole proteome tagging in C. elegans

This paper demonstrates a pilot study using fluorescent tags to label 30 C. elegans genes with three fluorophores, revealing new insights into protein expression and localization.

Two-dye-imager DNA-PAINT enables volumetric nanoscopy of expanded cells

The paper combines expansion microscopy with two-dye-imager DNA-PAINT to achieve nanometer-resolution 3D imaging of expanded cells.

A Spectrum of Possibilities: A Systematic Evaluation of Fluorescent Proteins in Cyanobacteria

This study evaluates fluorescent proteins in cyanobacteria to identify suitable options for research, finding several highly suitable proteins and combinations.

A modular multi-color fluorescence microscope for simultaneous tracking of cellular activity and behavior

The paper describes a modular fluorescence microscope for tracking cellular activity and behavior in moving animals, demonstrating its use in calcium imaging and inter-species interaction studies.

A Far-Red FRET biosensor for AMPK enables multiplexed imaging of single-cell bioenergetic homeostasis

The paper introduces a far-red FRET biosensor for AMPK activity, enabling multiplexed imaging of single-cell bioenergetic homeostasis and reveals kinetic coupling between AMPK and ATP/ADP ratio.

Whole-brain protein profiling using organ-scale multiplexed immunolabeling and image co-registration

This paper introduces 3D CYCLIC and TACTIC to enable organ-scale multiplexed protein imaging and co-registration, allowing comprehensive analysis of whole-brain protein profiles.

Green genetically encoded IP3 biosensor for hierarchical analysis of its signaling network

The paper develops a genetically encoded green fluorescent IP3 biosensor for detecting IP3 signals across concentrations and visualizing its signaling network with cAMP and Ca2+.

Aberration-aware 3D localization microscopy via self-supervised neural-physics learning

This paper introduces LUNAR, a self-supervised neural-physics learning framework for 3D localization microscopy that improves robustness to optical aberrations and high-density molecule localization.

Expansion Revealing of Pathology Resolves Nanostructures Associated with Inflammatory Phenotypes in COVID-19 Decedent Human Brain Tissue

The paper introduces ExRPath and 15ExMPath techniques to expand human brain tissue for nanostructure analysis, revealing amyloid nanoclusters associated with SARS-CoV-2 in COVID-19 patients.

Evaluation of fluorescent proteins for compatibility with STED microscopy systems using two-color spectroscopies

The paper evaluates fluorescent proteins for STED microscopy compatibility using two-color spectroscopy, showing improved 3D resolution in compatible proteins.

Polarization-engineered aberration-resilient light sheet microscopy

This paper introduces PEARLS, a new light sheet microscopy technique that reduces photobleaching and improves aberration resilience for 3D subcellular imaging in complex environments.

Combining membrane potential and calcium imaging in brain slices using the voltage sensitive dye ElectroFluor630 and the calcium indicator Calbryte520

This paper demonstrates the successful combination of voltage-sensitive dye and calcium imaging in hippocampal slices to study neuronal activity and synaptic transmission.

Functional imaging of nine distinct neuronal populations under a miniscope in freely behaving animals

The paper introduces Neuroplex, a method combining miniscope Ca2+ recordings with spectral imaging to identify nine neuronal subtypes in freely behaving animals.

Altair-dvOPM: an open-access platform for large-field three-dimensional tissue imaging

Altair-dvOPM is an open-access microscope for large-field 3D tissue imaging, achieving micrometer resolution without custom objectives or specialized alignment.

A light-weight, data-driven segmentation method for multi-state Brownian trajectories

This paper introduces a lightweight segmentation method for multi-state Brownian trajectories using Gaussian filtering and mixture modeling, showing high accuracy and lower computational load compared to deep learning or HMM approaches.

Implementation of an adaptive-optics assisted isoSTED nanoscope

This paper describes the construction and alignment of an adaptive-optics assisted isoSTED nanoscope for achieving isotropic sub-50-nm 3D resolution in thick biological samples.

Engineering a Bright Near-Infrared Fluorescent Protein by Screening a Comprehensive Phenotypic Landscape

The paper identifies mutations in smURFP that significantly increase in vivo fluorescence in E. coli through deep mutational scanning and biophysical analysis.

Uncertainty-aware localization microscopy by variational diffusion

This paper introduces a variational diffusion model for uncertainty-aware localization in single-molecule microscopy, enabling high-fidelity super-resolution and uncertainty estimation.

Design of an ultrabright biosensor for dynamic imaging of kinase activity in cells

The paper introduces NOVARK, an ultrabright biosensor for dynamic imaging of kinase activity, showing it can detect phosphorylation-induced assembly with higher brightness and dynamic range than existing methods.

Improved sensors for fructose-1,6-bisphosphate enable in vivo imaging of glycolysis

This paper develops an improved FBP sensor, HYlight2, for in vivo imaging of glycolysis in various organisms.

Physics-informed self-supervised learning enables spectra-free multiplexed imaging on standard fluorescence microscopes

This paper introduces PhySMI, a self-supervised framework for multiplexed imaging without spectral measurements, achieving high multiplexing with reduced crosstalk and improved imaging performance.

Automated FRET Analysis for Enhanced Characterization of Protein-Protein Interactions

The paper introduces an automated FRET analysis tool that improves reproducibility and reduces variability in protein-protein interaction studies.

A fluorescent reporter system for scalable and live detection of PYY production from enteroendocrine cells with single-event resolution

This paper develops a fluorescent reporter system to detect PYY secretion from human enteroendocrine cells with single-event resolution, enabling drug discovery for metabolic diseases.

Metal-induced energy transfer uncovers activation-induced axial reorganization of signaling complexes inside cells

This study uses metal-induced energy transfer to reveal that cytokine receptor intracellular domains compact upon activation.