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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.
Rigorous record-keeping and quality control are required to ensure the quality, reproducibility and value of imaging data. The 4DN Initiative and BINA here propose light Microscopy Metadata Specifications that extend the OME Data Model, scale with experimental intent and complexity, and make it possible for scientists to create comprehensive records of imaging experiments.
This manuscript proposes the use of spectral entropy similarity as a measure of similarity for small-molecule mass spectra and the use of a one-bond-difference approach for improving false discovery rates.
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.
This three-dimensional structural SARS-CoV-2–human interactome web server allows hypothesis-driven exploration of the mechanisms of SARS-CoV-2 pathology and host response.
Software solutions pGlyco3 and StrucGP both aim to better assign the glycan part of a glycopeptide beyond simple glycosyl composition, but they differ in their strategies, their requirement for a glycan library and their applicability to O-glycopeptides.
Anterograde transneuronal tracing can be achieved with engineered variants of the yellow fever vaccine YFV-17D. Both monosynaptic and polysynaptic tracing are demonstrated in different circuits of the mouse brain.
This work presents biotin-DNA affinity purification (DAP) sequencing, that is, an in vitro, clone-free workflow to profile transcription factor (TF) DNA binding, as well as multiDAP to simultaneously characterize TF DNA binding in multiple bacterial genomes.
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.
pGlyco3 is a glycan-first glycopeptide search engine for the identification and localization of site-specific N- and O-glycopeptides, including glycopeptides with modified glycans.