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DNA-PAINT is sped up by an order of magnitude by optimizing sequences and buffer conditions, enabling faster imaging with no compromise to image quality or resolution, improved single-molecule counting and enhanced cellular imaging.
The challenge of accurate particle picking in cryo-EM analysis is addressed with Topaz, a neural-network-based algorithm that shows advantages over other tools, especially in picking unusually shaped particles.
Fiber photometry with tapered fibers allows monitoring of neural activity in larger volumes than with flat-cleaved fibers. In addition, signals from different depths can be resolved with the same tapered fiber.
Phase plates improve contrast in cryo-electron microscopy, but suffer from electrostatic charging and electron scattering. A laser phase plate overcomes these problems and may improve imaging of biological specimens.
SCAPE 2.0 is a versatile imaging platform that enables real-time three-dimensional microscopy of cellular function and dynamic motion in living organisms at over 100 volumes per second with minimal photodamage, and high-throughput structural imaging in fixed, cleared and expanded samples.
Cell lines in which Nup96 is endogenously tagged with mEGFP, SNAP-tag, HaloTag or mMaple serve as versatile reference samples, enabling 3D resolution calibration, assessment of labeling efficiency and precise molecular counting.
Robust m1A mapping of the human transcriptome is enabled by directed evolution of an HIV-1 reverse transcriptase with efficient read-through and high mutation rates at m1A sites along with development of new tools for data analysis.
Functional ultrasound (fUS) imaging of neural activity has been extended to volumetric imaging across the whole brain. 4D fUS is demonstrated in the rat brain in response to sensory stimuli and during seizure-like activity.
Mass spectrometry imaging with fluoromethylpyridinium-based reactive matrices allows mapping of neurotransmitters at high resolution and at a low limit of detection. The approach is applied to rat, macaque and human brain tissue samples for probing Parkinson’s disease-related changes.
Getting around the limitations of antibody-based N6-methyladenosine (m6A) pulldown, such as high input requirements and cross-reactivity, DART-seq profiles transcriptome-wide m6A occurrences from RNA amounts equivalent to the RNA obtained from 1,000 cells.
Garnett uses a hierarchical markup language and machine learning to define cell types and their marker genes and identifies these cell types in scRNA-seq datasets from tissues and whole organisms and across species.
Single-nucleus methyl-3C sequencing jointly interrogates 3D chromatin organization and DNA methylation in human cells, and these joint measurements more accurately distinguish different cell types than either unimodal method.
CellAssign uses a probabilistic model to assign single cells to a given cell type defined by known marker genes, enabling automated annotation of cell types present in a tumor microenvironment.
A computational workflow combining image segmentation, computer graphics and supervised machine learning enables automated and robust 3D analysis of the coupling of cell shape and signaling.
Fusion to fluorescent proteins enables efficient two-photon activation of blue-light-controlled optical dimerizers via FRET. FRET-assisted photoactivation was used to study extracellular signal-regulated kinase activation in 3D epithelial cysts, organoids and living mice.
Repetitive optical selective exposure (ROSE) is an interferometric single-molecule localization microscopy method offering twofold improvement in lateral resolution with the same photon budget compared with conventional approaches.