imputation

A novel polycistronic method tailored for engineering split GECIs

The paper demonstrates a method using stop-codons to enable polycistronic expression in eukaryotic cells, leading to the development of split-GECIs for monitoring cellular processes.

A monochromatically excitable green-red dual-fluorophore fusion incorporating a new large Stokes shift fluorescent protein

The paper introduces a new fluorescent protein, LSSmApple, and uses it to create a genetically encoded calcium sensor for yeast imaging.

EMDiffuse: a diffusion-based deep learning method augmenting ultrastructural imaging and volume electron microscopy

EMDiffuse enhances volume electron microscopy by using diffusion models to improve resolution and enable isotropic reconstruction of large biological volumes.

CMOT: Cross Modality Optimal Transport for multimodal inference

CMOT infers missing single-cell modalities using optimal transport, outperforming existing methods and producing biologically interpretable results.

ABDS: tool suite for analyzing biologically diverse samples

ABDS provides tools for analyzing biologically diverse samples by addressing missing value imputation, signature gene detection, and expression pattern visualization.

Augmented Super-Resolution Radial Fluctuations (aSRRF) Pushing the Limits of Structured Illumination Microscopy

The paper introduces aSRRF, a method that enhances SIM resolution to ~50 nm isotropically using image augmentation without changing the optical setup or sample acquisition.

Imputation of low-coverage sequencing data from 150,119 UK Biobank genomes

The paper introduces GLIMPSE v2.0.0, a scalable imputation method for low-coverage genomes, reducing computational costs while maintaining high accuracy for rare variants and low-coverage samples.

MultiVI: deep generative model for the integration of multi-modal data

MultiVI integrates multi-modal single-cell data by creating a joint representation and imputing missing values while correcting batch effects.

Discovering Matrix Adducts for Enhanced Metabolite Profiling with Stable Isotope-Labeled MALDI-MSI

This study introduces a workflow using isotopic labeling to identify and remove matrix adducts in MALDI-MSI, improving metabolite annotation and tissue morphology interpretation.

Probabilistic tensor decomposition extracts better latent embeddings from single-cell multiomic data

SCOIT, a probabilistic tensor decomposition framework, improves latent embeddings from single-cell multiomic data, enhancing clustering and cross-omics analysis.

Bioorthogonal caging-group-free photoactivatable probes for minimal-linkage-error nanoscopy

The paper introduces photoactivatable dyes for super-resolution microscopy, demonstrating their use in imaging vimentin filaments with high precision.

Selective plane activation structured illumination microscopy

This study improves structured illumination microscopy by using selective plane illumination and photoswitchable proteins to eliminate out-of-focus background, enabling high-resolution imaging of volumetric samples.

Phase-shifting mid-infrared optothermal microscopy for wide-field hyperspectral imaging of living cells

This paper introduces PSOM, a technique for fast live-cell hyperspectral imaging with large FOVs and high confluency, achieving reduced noise and lower photodamage.

FluoMALDI microscopy: matrix co-crystallization simultaneously enhances fluorescence and MALDI imaging

This paper introduces FluoMALDI microscopy, which enhances fluorescence and MALDI imaging by co-crystallizing fluorophores with MALDI matrices, enabling simultaneous high-resolution imaging of the same tissue sections.

Super-resolution imaging of neuronal structure with structured illumination microscopy

The paper uses structured illumination microscopy to achieve super-resolution imaging of a thick mouse brain section, achieving 144 nm resolution, 1.7x better than conventional widefield imaging.

GPC: An expressive and tractable deep generative model for genetic variation data

This paper introduces GPC, a deep generative model for genetic variation data that improves imputation accuracy and privacy preservation compared to existing methods.

Trifunctional linkers enable improved visualization of actin by expansion microscopy

The paper introduces TRITON trifunctional linkers to improve actin visualization in expansion microscopy, achieving better signal retention and anchoring.

Deep learning-enhanced single-molecule spectrum imaging

This paper introduces SpecGAN, a deep learning method that significantly improves single-molecule spectrum imaging efficiency by reducing photon requirements and increasing temporal resolution.

RFP-CyanineDye Probe Pair for In vivo Neurovascular Multiphoton Imaging

The paper introduces a fluorescence probe pair for in vivo neurovascular imaging, enabling simultaneous labeling of neurons and blood vessels with improved signal strength and depth penetration.

ProteinSGM: Score-based generative modeling for de novo protein design

This paper introduces ProteinSGM, a score-based diffusion model for de novo protein design, showing it can generate native-like structures and perform conditional design.

Development of two mouse strains conditionally expressing bright luciferases with distinct emission spectra as new tools for in vivo imaging

This paper develops two mouse strains with Cre-dependent luciferases for in vivo imaging, showing distinct emission spectra and improved brightness for specific tissues.

Backscattering Amplitude in Ultrasound Localization Microscopy

This paper introduces backscattering amplitude in ultrasound localization microscopy to improve 3D vascular imaging and quantification by enhancing sensitivity and providing out-of-plane motion information.

Supramolecular catch-and-release strategy for bioorthogonal fluorogenic imaging across the visible spectrum

This paper introduces a supramolecular catch-and-release strategy for bioorthogonal fluorogenic imaging using cucurbit[7]uril, enabling efficient and generalizable fluorogenic responses from diverse fluorophores without structural modifications.

Multiplexed Sequential Imaging in Living Cells with Orthogonal Fluorogenic RNA Aptamer/Dye Pairs

This paper introduces seqFRIES, a method for multiplexed live-cell imaging using orthogonal RNA aptamer/dye pairs, achieving four-color imaging in ~20 minutes.

Missing values are informative in label-free shotgun proteomics data: estimating the detection probability curve

The paper argues that missing values in label-free shotgun proteomics data are informative and proposes a statistical method to estimate the detection probability curve as a function of intensity.

The TriScan: fast and sensitive 3D confocal fluorescence imaging using a simple optical design

The paper introduces a fast and sensitive 3D confocal fluorescence microscope called TriScan, combining speed and resolution for various applications.

Benchmarking imputation methods for discrete biological data

This study benchmarks imputation methods for discrete biological traits using a pipeline combining phylogenetic, machine learning, and deep learning approaches, finding an ensemble method to be most accurate.

Self-supervised denoising for structured illumination microscopy enables long-term super-resolution live-cell imaging

The paper introduces a self-supervised denoising method for structured illumination microscopy that enables high-quality super-resolution imaging with reduced fluorescence.

Conditional Generative Learning for Medical Image Imputation

This paper develops a generative algorithm for medical image imputation, showing it outperforms deterministic deep learning methods and provides confidence measures for imputed images.

Principles and best practices of optimizing a micromirror-based multicolor TIRF microscopy system

This paper introduces the theory and practical guidance for optimizing a micromirror-based TIRF microscopy system to improve signal quality and data accuracy.