imputation

Quantum Spin Resonance in Engineered Magneto-Sensitive Fluorescent Proteins Enables Multi-Modal Sensing in Living Cells

This paper introduces engineered magneto-sensitive fluorescent proteins that enable quantum sensing in living cells through optically detected magnetic resonance.

VISTA Uncovers Missing Gene Expression and Spatial-induced Information for Spatial Transcriptomic Data Analysis

VISTA improves spatial transcriptomic data by imputing missing gene expression and enables downstream analyses like ligand-receptor discovery and spatial velocity inference.

Microscopy Nodes: versatile 3D microscopy visualization with Blender

Microscopy Nodes enables 3D microscopy data visualization in Blender, supporting various formats and visualization modes for light and electron microscopy.

mRNAbow: A versatile gene expression system for multiplexed fluorescent imaging using optimized in vitro transcribed mRNA

The paper develops mRNAbow, a system for generating low-toxicity mRNAs for multiplexed fluorescent imaging in diverse cellular and organismal systems.

Large field of view fluorescence imaging of microfluidic devices with a tandem-lens macroscope

This paper introduces a macroscope for wide-field fluorescence imaging in microfluidic devices, achieving high sensitivity and temporal resolution over a large area.

MAGNET: an all-in-one foundation model for cross-modal and cross-dimensional microscopic image restoration

MAGNET is a foundation model for microscopic image restoration that handles multiple modalities and tasks, achieving state-of-the-art results across various restoration tasks.

Modanovo: A Unified Model for Post-Translational Modification-Aware de Novo Sequencing Using Experimental Spectra from In Vivo and Synthetic Peptides

Modanovo is a de novo peptide sequencing model that handles post-translational modifications, outperforming existing methods and complementing database searches in phosphoproteomics.

Real-Time Wide-Field Fluorescence Lifetime Imaging via Single-Snapshot Acquisition for Biomedical Applications

This paper introduces a real-time fluorescence lifetime imaging method using single-snapshot acquisitions, demonstrating its application in biomedical scenarios from microscopic to macroscale.

ColorSTEM: An easy and convenient approach to Multicolor Electron Microscopy of Labeled Biological Specimens

ColorSTEM improves multicolor electron microscopy by using metal-conjugated DAB to enhance signal and simplify imaging.

OS2CR-Diff: A Self-Refining Diffusion Framework for CD8 Imputation from One-Step Inference to Conditional Representation

OS2CR-Diff improves CD8 biomarker imputation in mIF images by using a self-refining diffusion model with multiple conditional inputs and a feature fusion module.

Mitochondrial DNA Imputation Accuracy and Its Application in a Southern African Mitochondrial Genome-wide Association Study

The paper evaluates MitoImpute's accuracy in southern African populations and applies it to a TB miWAS, finding limited success in capturing population-specific variants.

Spatial Polarization-Induced Fluorescence Fluctuation Imaging (SPIFFI) Enables Single-shot Super-Resolution and Multidimensional Imaging

SPIFFI enables single-shot super-resolution and six-dimensional imaging by leveraging polarization-induced fluorescence fluctuations, enhancing live-cell imaging capabilities.

Regioisomer-controlled red-shifted DNA probes for imaging of living tissues

The paper develops and evaluates regioisomer-controlled red-shifted DNA probes for in vivo imaging, finding that 5' regioisomers provide optimal performance in multiple tissues.

Single-objective lattice light sheet microscopy with microfluidics for single-molecule super-resolution imaging of mammalian cells

This paper introduces a single-objective lattice light sheet microscopy platform for improved 3D single-molecule super-resolution imaging in scattering samples.

Low-Cost 3D Printed Optics for Super-Resolution Multifocal Structured Illumination Microscopy

This paper develops low-cost 3D printed lenslet arrays for super-resolution microscopy, achieving resolution comparable to commercial optics.

Biocompatible sulfonium-based covalent probes for endogenous tubulin fluorescence nanoscopy in live and fixed cells

The paper develops a biocompatible fluorescent probe for tubulin labeling in live and fixed cells, enabling high-resolution imaging with minimal functional disruption.

SVCROWS: A User-Defined Tool for Interpreting Significant Structural Variants in Heterogeneous Datasets

SVCROWS improves structural variant interpretation by merging SVs with a size-weighted reciprocal overlap framework, maintaining accuracy and preserving rare genotypes in complex datasets.

Maximising imaging volumes of expanded tissues for inverted fluorescence microscopy

The paper introduces a method to improve deep imaging of expanded tissues using inverted microscopes by using FEP film and water immersion objectives, achieving sub-micron resolution and 800 µm depth.

All-Optical Strategies to Minimize Photo-Bleaching in Reversibly Switchable Fluorescent Proteins

The paper develops all-optical strategies to reduce photo-bleaching in reversibly switchable fluorescent proteins, enhancing imaging resolution and duration.

Joint imputation and deconvolution of gene expression across spatial transcriptomics platforms

This paper introduces SIID, an algorithm that integrates spatial transcriptomics data from different platforms to impute missing gene expression and deconvolve mixed cell-type signals.

Azimuthal Segment Imaging in cryo-STEM Tomography

This paper introduces parallax-filtered cryo-STET imaging to enhance contrast in thick biological specimens, demonstrating improvements over traditional STEM methods.

Scalable integration and prediction of unpaired single-cell and spatial multi-omics via regularized disentanglement

This paper introduces scMRDR, a framework for integrating unpaired single-cell and spatial multi-omics data, showing strong performance in batch correction and spatial mapping.

Customizable FDM-based zebrafish embryo mold for live imaging

The paper introduces a 3D-printed mold for zebrafish embryos to enable consistent live imaging by maintaining dorsoventral orientation.

cpiVAE: Robust and Interpretable Cross-Platform Proteomics Imputation

cpiVAE improves cross-platform proteomics imputation between Olink and SomaScan, achieving higher correlation than KNN and WNN, and enabling better phenotype associations.

Imputation of cancer proteomics data with a deep model that learns from many datasets

The paper introduces Lupine, a deep learning method for imputing missing values in TMT proteomics data, showing improved accuracy and identification of differentially expressed proteins across cancer datasets.

Denoising Single-Cell RNA-Seq Data with a Deep Learning-Embedded Statistical Framework

ZILLNB denoises and imputes scRNA-seq data by combining zero-inflated negative binomial regression with deep generative modeling, improving gene expression accuracy and subpopulation identification.

STPath: A Generative Foundation Model for Integrating Spatial Transcriptomics and Whole Slide Images

A masked-expression Transformer trained on 983 paired H&E and spatial transcriptomics slides predicts 38,984 genes from histology without fine-tuning, leading HEST-Bench and improving survival and mutation prediction.

Stretchable thin-film metal electronics enabled by multilayered nanomembranes

This paper introduces a multilayered nanomembrane platform for stretchable metal electronics, achieving high conductivity at extreme strains through crack-bridging pathways.

Using regularized regression and biological covariation to impute missing values in quantitative proteomics

The paper introduces a method to impute missing proteomics data using regularized regression and biological covariation, achieving high accuracy across multiple measurement modalities.

Open Raman Microscopy (ORM): A Modular Hardware and Software Framework for Accessible Raman Imaging

The paper introduces an open-source Raman microscopy framework with modular hardware and software for accessible chemical imaging across various applications.