imputation

Expected Genotype Quality and Diploidized Marker Data from Genotyping-by-Sequencing of Urochloa spp. Tetraploids

The paper develops a method to convert tetraploid GBS data into diploidized genotype calls and evaluates its performance using Urochloa hybrids.

Three dimensional nanoscopy of whole cells and tissues with in situ point spread function retrieval

This paper introduces a method to achieve high-precision 3D nanoscopy across whole cells and tissues by retrieving the in situ point spread function from single-molecule data.

Evaluation of direct grafting strategies in Expansion Microscopy

The paper introduces a chemical linking approach for direct grafting in expansion microscopy to improve signal preservation and enable multiplexed imaging.

A general strategy to develop cell permeable and fluorogenic probes for multi-colour nanoscopy

The paper develops a strategy to create fluorogenic probes for live-cell nanoscopy with high cell permeability and low background signal.

Single Photon, Time-Gated, Phasor-based Fluorescence Lifetime Imaging Through Highly Scattering Medium

This paper develops a time-gated single-photon fluorescence lifetime imaging method to overcome scattering and autofluorescence in vivo.

Family-specific genotype arrays increase the accuracy of pedigree based imputation at very low marker densities

This study shows that family-specific low-density genotype arrays improve pedigree-based imputation accuracy, especially at very low marker densities.

TIGAR: An Improved Bayesian Tool for Transcriptomic Data Imputation Enhances Gene Mapping of Complex Traits

The paper introduces a Bayesian method for transcriptomic data imputation that improves gene mapping of complex traits by enhancing imputation accuracy and TWAS power over existing tools.

Robin Hood: non-fitting, non-smoothing image detrending for bleaching correction

The paper introduces Robin Hood, an automatic detrending algorithm for fluorescence microscopy that performs well at low intensities, and evaluates it using simulated and low photon budget live cell images.

VIEW-MOD: A Versatile Illumination Engine With a Modular Optical Design for Fluorescence Microscopy

The paper introduces a modular fluorescence microscope with flexible illumination and imaging modes, demonstrating its use in biosensor imaging, optogenetics, and 3D volume imaging.

RAISS: Robust and Accurate imputation from Summary Statistics

RAISS improves the imputation of genetic variants from GWAS summary statistics, achieving high accuracy for small effect size variants suitable for multi-trait analyses.

NOISYmputer: genotype imputation in bi-parental populationsfor noisy low-coverage next-generation sequencing data

NOISYmputer improves genotype imputation for noisy low-coverage sequencing data in bi-parental populations by addressing missing data, errors, and heterozygous loci.

Numerically enhanced adaptive optics-based 3D STED microscopy for deep-tissue super-resolved imaging

This paper introduces a 3D STED microscope with automated aberration correction and BM3D denoising to improve super-resolved imaging through thick tissue.

Comprehensive integration of single cell data

Seurat v3 finds scored mutual-nearest-neighbor anchors in canonical correlation space to integrate scRNA-seq batches and transfer labels, protein levels and transcriptome-wide expression across modalities.

Mind the gap: micro-expansion joints drastically decrease the bending of FIB-milled cryo-lamellae

This paper introduces micro-expansion joints to reduce lamella bending during cryo-FIB-milling, improving structural studies of biological samples.

Graphene-enabled, spatially controlled electroporation of adherent cells for live-cell super-resolution microscopy

This paper introduces a graphene-based method for delivering fluorescent probes into live cells and performing super-resolution microscopy with high efficiency and spatial control.

Genotype Imputation and Reference Panel: A Systematic Evaluation

The paper evaluates genotype imputation accuracy across Han Chinese and European populations using 394 reference panels, finding optimal diversity levels and highlighting the need for better Chinese reference panels.

Simultaneous 3D super-resolution fluorescence microscopy and atomic force microscopy: combined SIM and AFM platform for cell imaging

This paper introduces a combined SIM and AFM platform for simultaneous 3D super-resolution fluorescence and atomic force microscopy, enabling spatially correlated imaging of cells without cell-to-cell variation.

Generating High Density, Low Cost Genotype Data in Soybean

The paper demonstrates that low-depth sequencing combined with imputation using a high-depth reference panel can accurately generate high-density SNP data in soybean at a lower cost.

Bubble Trouble: Conquering Microbubble Limitations in Contrast Enhanced Ultrasound Imaging by Nature-Inspired Ultrastable Echogenic Nanobubbles

This paper develops ultrastable nanobubbles for ultrasound imaging by engineering a dual-layer shell inspired by bacterial cell envelopes, improving in vivo stability and signal persistence.

Photoactivation of silicon rhodamines via a light-induced protonation

This paper introduces a new photoactivatable fluorophore that enables live-cell super-resolution microscopy without caging groups or side-products.

Easy Two-Photon Image Scanning Microscopy with SPAD Array and Blind Image Reconstruction

This paper introduces a two-photon image scanning microscopy (2PE-ISM) system that improves optical resolution and image quality without user calibration.

Sequence Imputation from Low Density Single Nucleotide Polymorphism Panel in a Black Poplar Breeding population

This study imputes low-density SNP panels to whole genome sequences in black poplar trees, achieving high accuracy and showing the impact of relatedness and SNP density on imputation quality.

Volumetric two-photon imaging in live cells and embryos via axially gradient excitation

This paper introduces a gradient two-photon microscopy technique that enables rapid volumetric imaging with reduced phototoxicity by using two axially gradient excitation beams.

Kinpute: Using identity by descent to improve genotype imputation

Kinpute improves genotype imputation by integrating identity by descent information with LD-based imputation, enhancing accuracy in underrepresented populations.

Nanodiamonds enable adaptive-optics enhanced, super-resolution, two-photon excitation microscopy

This paper shows nanodiamonds enable super-resolution two-photon microscopy with adaptive optics, achieving 42.5 nm resolution using Super-Resolution Radial Fluctuations.

Enhanced 4Pi single-molecule localization microscopy with coherent pupil based localization and light sheet illumination

This paper introduces an improved localization algorithm and light-sheet illumination for 4Pi single-molecule microscopy, enhancing 3D resolution and reducing background noise.

Melissa: Bayesian clustering and imputation of single cell methylomes

Melissa clusters and imputes single-cell methylomes using a Bayesian method, providing accurate results on simulated and real data.

Whole exome sequencing and characterization of coding variation in 49,960 individuals in the UK Biobank

Exomes of 49,960 UK Biobank participants reveal 231,631 predicted loss-of-function variants (>10-fold more than imputed data); burden tests implicate PIEZO1, MEPE, and COL6A1 in disease traits.

Locality Sensitive Imputation for Single-Cell RNA-Seq Data

The paper evaluates existing scRNA-Seq imputation methods and introduces a novel iterative approach based on similar cells, assessing performance on real datasets with varying sequencing depth.

Ultra-thin fluorocarbon foils optimize multiscale imaging of three-dimensional native and optically cleared specimens

This paper introduces ultra-thin fluorocarbon foils for improved multiscale imaging of 3D specimens, showing enhanced imaging quality and compatibility with various clearing media.