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Quantitative and sensitive methods for the detection of pseudouridine (Ψ) have been lacking. Now, a method termed 2-bromoacrylamide-assisted cyclization sequencing (BACS) has been developed that enables the accurate quantification of Ψ stoichiometry, precise identification of Ψ positions and robust detection of densely modified Ψ sites.
This study introduces a chemical method, BACS, that generates Ψ-to-C mutation signatures, allowing for sequencing and quantification of Ψ at single-base resolution.
UnitMatch tracks neurons in electrophysiological recordings across multiple recording sessions. UnitMatch relies on the spike waveform and allows tracking neurons even when their functional properties change such as during memory formation.
Vitessce is a robust and versatile web-based framework for interactive visualization of large-scale multiomics and spatial data at the single-cell level.
This work presents Strainy, a long-read metagenome assembler that allows the identification of strain distributions and mutational patterns in environmental metagenomes.
This Analysis study compares computational methods for single-cell multi-omics prediction and integration, generating useful insights for method users and developers working with different analysis purposes and biological problems.
This Review describes how photoswitchable probes and associated hardware innovations are poised to transform optoacoustic imaging in life sciences research.
A neural space–time model can recover a dynamic scene by modeling its spatiotemporal relationship in multi-shot imaging reconstruction for reduced motion artifacts and improved imaging of fast processes in living cells.
Similarly to CRISPR–Cas systems, TnpB proteins from bacterial transposons can be employed as RNA-guided endonucleases for genome editing. By combining rational protein design and machine learning, ISDra2 TnpB variants with enhanced editing efficiency and a broader targeting range were developed, along with a prediction tool to design effective guiding RNAs.
This work introduces engineered TnpBmax proteins with enhanced efficiency and an expanded targeting range. By leveraging an extensive dataset on editing efficiencies, it also integrates a deep learning model to predict guide RNA activity.
WHaloCaMP is a chemigenetic calcium indicator that can be combined with different rhodamine dyes for multiplexed or FLIM imaging in vivo, as demonstrated for calcium imaging in neuronal cultures, brain slices, Drosophila, zebrafish larvae and the mouse brain.
Cortical development is influenced by morphogen gradients. To mimic patterning events during brain development, polarized cortical assembloids are generated with the help of a localized FGF8 source.
CAST is a deep learning-based method that enables across-sample searching and matching based on spatial molecular features and reconstructing spatially resolved single-cell multi-omic profiles, as well as supports downstream differential analysis.
The Genomics 2 Proteins portal is an open-source tool for proteome-wide linking of human genetic variants to protein sequences and structures. The portal serves as a discovery tool to hypothesize the structure–function relationship between natural or synthetic variations and their molecular phenotypes.
Arkitekt is an open-source platform that facilitates the implementation of complex quantitative bioimaging workflows in real time, from acquisition to visualization and analysis.
