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Micro-Meta App is an intuitive, highly interoperable, open-source software tool designed to facilitate the extraction and collection of relevant microscopy metadata as specified by recent community guidelines.
OME’s next-generation file format (OME-NGFF) provides a cloud-native complement to OME-TIFF and HDF5 for storing and accessing bioimaging data at scale and works toward the goal of findable, accessible, interoperable and reusable bioimaging data.
MCMICRO is a modular and open-source computational pipeline for transforming highly multiplexed whole-slide images of tissues into single-cell data. MCMICRO is versatile and can be used with CODEX, mxIF, CyCIF, mIHC and H&E staining data.
DeepImageJ offers a user-friendly solution in ImageJ to run trained deep learning models for biomedical image analysis. It includes guiding tools for reliable analyses, contributing to the democratization of deep learning in microscopy.
Universal Spectrum Identifier (USI) provides a standardized mechanism for encoding a virtual path to mass spectra deposited to public repositories or contained in public spectral libraries.
An updated version of DIAMOND uses improved algorithmic procedures and a customized high-performance computing framework to make seemingly prohibitive large-scale protein sequence alignments feasible.
Bolaños et al. present a realistic three-dimensional virtual mouse model that can be animated and that facilitates the training of pose estimation algorithms.
ROSE-Z achieves axial interference through an asymmetrical optical scheme, yielding 2 nm axial localization precision with ~3,000 photons and a single objective, which offers improved multicolor three-dimensional localization microscopy for cellular structures.
Commonly used organic dyes can photoconvert to blue-shifted fluorescent species, especially under intense illumination. The mechanism of this process and how to avoid unwanted artifacts in super-resolution microscopy are explored here.
G-GESS is a serotonin biosensor, derived from a tick serotonin-binding protein. The biosensor has been applied here in cell culture, primary neurons, mouse brain slices and in vivo in the mouse brain.
The DRACO algorithm deconvolutes coexisting RNA structures from mutational profiling experiments, and can be applied to bacterial regulatory structures and elements from the SARS-CoV-2 genome.