7,290 Result(s)
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English
Bioinformatics
Biological Microscopy
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Article
Open AccessProteome-scale tagging and functional screening in mammalian cells by ORFtag
The systematic determination of protein function is a key goal of modern biology, but remains challenging with current approaches. Here we present ORFtag, a versatile, cost-effective and highly efficient metho...
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Open AccessMicrosecond time-resolved X-ray scattering by utilizing MHz repetition rate at second-generation XFELs
Detecting microsecond structural perturbations in biomolecules has wide relevance in biology, chemistry and medicine. Here we show how MHz repetition rates at X-ray free-electron lasers can be used to produce ...
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Open AccessSystematic comparison of sequencing-based spatial transcriptomic methods
Recent developments of sequencing-based spatial transcriptomics (sST) have catalyzed important advancements by facilitating transcriptome-scale spatial gene expression measurement. Despite this progress, effor...
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CRISPR-array-mediated imaging of non-repetitive and multiplex genomic loci in living cells
Dynamic imaging of genomic loci is key for understanding gene regulation, but methods for imaging genomes, in particular non-repetitive DNAs, are limited. We developed CRISPRdelight, a DNA-labeling system base...
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Open Accessquantms: a cloud-based pipeline for quantitative proteomics enables the reanalysis of public proteomics data
The volume of public proteomics data is rapidly increasing, causing a computational challenge for large-scale reanalysis. Here, we introduce quantms (https://quant,ms.org/
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Gapr for large-scale collaborative single-neuron reconstruction
Whole-brain analysis of single-neuron morphology is crucial for unraveling the complex structure of the brain. However, large-scale neuron reconstruction from terabyte and even petabyte data of mammalian brain...
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Open AccessCellRank 2: unified fate map** in multiview single-cell data
Single-cell RNA sequencing allows us to model cellular state dynamics and fate decisions using expression similarity or RNA velocity to reconstruct state-change trajectories; however, trajectory inference does...
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Open AccessDeconwolf enables high-performance deconvolution of widefield fluorescence microscopy images
Microscopy-based spatially resolved omic methods are transforming the life sciences. However, these methods rely on high numerical aperture objectives and cannot resolve crowded molecular targets, limiting the...
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Open AccessKeypoint-MoSeq: parsing behavior by linking point tracking to pose dynamics
Keypoint tracking algorithms can flexibly quantify animal movement from videos obtained in a wide variety of settings. However, it remains unclear how to parse continuous keypoint data into discrete actions. T...
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Open AccessVirtual reality-empowered deep-learning analysis of brain cells
Automated detection of specific cells in three-dimensional datasets such as whole-brain light-sheet image stacks is challenging. Here, we present DELiVR, a virtual reality-trained deep-learning pipeline for de...
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Open AccessEffects and avoidance of photoconversion-induced artifacts in confocal and STED microscopy
Fluorescence microscopy is limited by photoconversion due to continuous illumination, which results in not only photobleaching but also conversion of fluorescent molecules into species of different spectral pr...
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Open AccessA bistable inhibitory optoGPCR for multiplexed optogenetic control of neural circuits
Information is transmitted between brain regions through the release of neurotransmitters from long-range projecting axons. Understanding how the activity of such long-range connections contributes to behavior...
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High-throughput volumetric map** of synaptic transmission
Volumetric imaging of synaptic transmission in vivo requires high spatial and high temporal resolution. Sha** the wavefront of two-photon fluorescence excitation light, we developed Bessel-droplet foci for h...
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How’s your health, forests?
Assessing forest health and resilience is an urgent, many-methods task that takes global collaboration, data collected at multiple scales and a willingness to be surprised.
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Capturing nascent transcripts in single cells
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DART.2: bidirectional synaptic pharmacology with thousandfold cellular specificity
Precision pharmacology aims to manipulate specific cellular interactions within complex tissues. In this pursuit, we introduce DART.2 (drug acutely restricted by tethering), a second-generation cell-specific p...
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Open AccessData-driven regularization lowers the size barrier of cryo-EM structure determination
Macromolecular structure determination by electron cryo-microscopy (cryo-EM) is limited by the alignment of noisy images of individual particles. Because smaller particles have weaker signals, alignment errors...
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Lightning Pose: improved animal pose estimation via semi-supervised learning, Bayesian ensembling and cloud-native open-source tools
Contemporary pose estimation methods enable precise measurements of behavior via supervised deep learning with hand-labeled video frames. Although effective in many cases, the supervised approach requires exte...
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Bats
Bats, the only flying mammals, comprise almost 25% of mammalian species. They are excellent navigators, highly social, and extremely long-lived. Their sense of echolocation has been studied for many years — bu...
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Quantifying cell-state densities in single-cell phenotypic landscapes using Mellon
Cell-state density characterizes the distribution of cells along phenotypic landscapes and is crucial for unraveling the mechanisms that drive diverse biological processes. Here, we present Mellon, an algorith...
