imputation

Cross-tissue Graph Attention Networks for Semi-supervised Gene Expression Prediction

This paper introduces gemGAT, a graph attention network for gene expression imputation across tissues, showing improved performance over regression-based methods on GTEx and ADNI data.

Pro-GAT: Reconnecting Fragmented PROTACs Using Graph Attention Transformer

Pro-GAT repairs chemically disconnected PROTAC candidates generated by diffusion models, improving validity while maintaining uniqueness.

A 515,579-Genome Reference Panel Improves Rare-Variant Imputation Across Multiple Underrepresented Populations

The paper presents a large reference panel of 515,579 genomes to improve rare-variant imputation across underrepresented populations, enhancing accuracy for variants with frequencies as low as 0.002%.

Hi-Cformer enables multi-scale chromatin contact map modeling for single-cell Hi-C data analysis

Hi-Cformer models multi-scale chromatin contact maps from single-cell Hi-C data, improving cell type separation and imputation of 3D genome features.

Benchmarking Imputation Methods for Single-Cell RNA Sequencing Data Using Peripheral Blood Mononuclear Cells from Acute Myocardial Infarction Patients

The paper benchmarks imputation methods on scRNA-seq data from AMI patients to assess their impact on downstream analysis.

Self-blinking dye restores efficient use of nanobodies in single-molecule localization microscopy.

This paper demonstrates that self-blinking dye JF635b improves nanobody performance in single-molecule localization microscopy, enabling reliable imaging across multiple modalities with high precision.

Single-dye, transfection-free FLIM multiplexing via bioorthogonal chemistry

The paper demonstrates a method to multiplex FLIM using small molecule probes modified with bioorthogonal chemistry to achieve distinct fluorescent lifetimes without transfection.

Kinetic and Mechanistic Characterization of RSpFAST, A Non-Covalent Versatile Chemogenetic Platform for Fluorescence Imaging

This paper introduces RSpFAST, a non-covalent chemogenetic platform for fluorescence imaging, and demonstrates its dual behavior as a stable label and a reversible photoswitcher.

MPGEM: A harmonized and transcriptome-complete resource for large-scale reuse of legacy human microarray data

MPGEM harmonizes and completes gene-expression profiles from legacy microarray datasets, enabling large-scale transcriptomic analysis.

Spatially pooling photon information enables photon-efficient quantitative imaging

This paper introduces a method to recover spatially distributed photon information for quantitative imaging, improving precision in low-photon regimes.

RADF: Reference-Anchored Dynamic Flow for Spatial Perturbation Profile Completion

RADF completes spatial perturbation profiles by combining reference-supported population anchors with location-dependent refinement, reducing macro E-distance by 70.6%.

Inverse-scattering in biological samples via beam-propagation

This paper demonstrates that using an amplitude-only cost function with angular and defocus diversity in multi-slice beam propagation improves inverse-scattering reconstruction quality in biological samples.

Inferring Protein Variant Impacts Across Contexts

The paper evaluates imputation methods for contextual variant effects in MAVE studies, finding that method choice depends on data density and task requirements.

A simple demonstration of a privacy-preserving de-centralised genotype imputation workflow

The paper demonstrates a privacy-preserving decentralized genotype imputation workflow using a federated approach, showing it can protect sensitive data while enabling imputation on plain-text files.

Tensile Expansion Mass Spectrometry for single cell metabolomics imaging

Tensile stretching of live, unfixed OVCAR8 cells on a fibronectin-functionalized double-network hydrogel expands them about 1.7x linearly, enabling single-cell MALDI metabolite imaging on unmodified commercial instruments.

A non-toxic, user-friendly buffer that enhances green fluorophore performance in conventional and super-resolution imaging

The paper introduces a non-toxic buffer that enhances green fluorophore brightness and photostability in both conventional and super-resolution imaging.

A cross-modal generative model for incomplete and degradedprostate MRI with multicentre clinical validation

This paper develops MSCNet, a cross-modal generative model for reconstructing and restoring prostate MRI sequences, showing improved image quality and diagnostic performance in multicentre validation.

Streamlining large-scale high-resolution electron tomography with VolWeaver

The paper optimizes a transmission electron tomography workflow for malaria parasites and introduces VolWeaver to integrate high-resolution tomographic data into serial section volume reconstructions.

SpatialMOC: Accurate reconstruction of spatial multi-omics landscapes through cross-modality prediction

SpatialMOC reconstructs missing spatial multi-omics data by integrating spatial context and cross-modality learning, outperforming existing methods across multiple tissues and modalities.

Space-Time Light-Sheet Microscopy

This paper introduces space-time light-sheet microscopy (ST-LSM), a single-objective technique that improves imaging volume and field of view while maintaining resolution.

Genotype imputation and error estimation in connected multiparental populations

This paper introduces MagicImpute, a genotype imputation tool for multiparental populations that improves computational efficiency and error handling, showing accuracy across real datasets with missing parents and sequencing errors.

Enhanced 2D structured illumination microscopy: super-resolution with optical sectioning and reduced reconstruction artifacts

This paper introduces enhanced 2D-SIM to reduce reconstruction artifacts and improve resolution in thick samples using optimized coarse and fine patterns.

A pangenome-graph approach for mapping and imputing barley sequences

Pan20, a Practical Haplotype Graph of 20 barley genomes, assigns sequences MorexV3 coordinates and imputes genotyping-by-sequencing (GBS) reads at 0.06% base-call error versus 0.32% for variant calling.

Enhancing Pan-cancer Spatial Transcriptomics atSingle-cell Resolution with stPainter

STPAINTER enhances spatial transcriptomics data using a pre-trained scRNA-seq atlas, enabling high-fidelity downstream analysis across cancer types.

GRIMM-II: A Two-Stage Real-Time Algorithm for Nine-Locus HLA Imputation and Matching with Up to Three Mismatches

GRIMM-II improves HLA donor matching by imputing nine loci and identifying donors with up to three mismatches in real-time.

De novo transformer modeling improves recovery of genetic cell types from sparse single-cell RNA sequencing

This study develops a sample-specific transformer model to improve genotype imputation from sparse single-cell RNA sequencing data, enhancing the recovery of genetic cell types.

Cyclic voltammetry electropolymerization of PEDOT: Polydopamine on gold electrodes

This paper describes a method to create PEDOT:PDA coatings on gold electrodes using cyclic voltammetry, resulting in enhanced electrochemical performance for bioelectronic applications.

Broadband electronic resonance coherent anti-Stokes/Stokes Raman scattering microscopy

This paper introduces BER-CARS/CSRS microscopy, which enables highly sensitive, label-free imaging of endogenous chromophores with broad spectral coverage, applied to living cells and tissues.

STRIDE: Signal Transfer and Aligned Ion-Peak Discrimination for Peptidoform Evidence for Consistent Quantification of Site-Localized Post-Translational Modifications in Large-Scale DIA-MS

STRIDE improves phosphopeptide quantification by reducing false negatives and enhancing consistent peak assignment across DIA-MS runs.

Compact red-shifted near-infrared fluorescent proteins enable deep-tissue SWIR imaging with in vivo optical clearing.

The paper develops red-shifted near-infrared fluorescent proteins for deep-tissue SWIR imaging, showing improved signal and imaging depth in vivo.