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Lightning Pose is an efficient pose estimation approach that requires few labeled training data owing to its semi-supervised learning strategy and ensembling.
The EMDataResource Ligand Model Challenge aimed at assessing the reliability and reproducibility of modeling ligands bound to protein and protein–nucleic acid complexes in cryo-EM maps determined at near-atomic resolution. This analysis presents the results and recommends best practices for assessing cryo-EM structures of liganded macromolecules.
SpatialGlue is a graph neural network-based approach for integrating multimodal spatial omics data. Combining complementary data modalities improves the discovery of spatial domains as well as the identification of cell subpopulations across tissues.
Bessel-droplet two-photon fluorescence microscopy offers high-contrast and high-resolution volumetric imaging in vivo and can be used for high-throughput mapping of functional synaptic organization in the mouse brain.
Permittivity tensor imaging is a label-free computational microscopy approach that enables the three-dimensional measurement of molecular permittivity tensors, revealing information about a biomolecule’s dry mass and orientation in cells and tissues.
This work describes scEdU-seq for studying replication fork speed in single cells, which enables researchers to investigate variability in replication speed along S phase and its associations with transcription and DNA damage.
DART (drug acutely restricted by tethering) enables the manipulation of native receptors on genetically defined neurons. This work describes second-generation DART reagents for manipulating GABAA and AMPA receptors with higher cellular specificity than previously achieved.
Although not widely appreciated, measured smFRET efficiencies can vary depending on illumination intensity. Self-healing fluorophores offer robust triplet state suppression to enable accurate smFRET measurements under broad illumination regimes.
Blush regularization makes use of a neural network pre-trained on a diverse set of high-resolution cryo-EM half-maps to improve image alignment, effectively lowering the size barrier, during cryo-EM structure determination.
This Registered Report presents the results of the Long-read RNA-Seq Genome Annotation Assessment Project, which is a community effort for benchmarking long-read methods for transcriptome analyses, including transcript isoform detection, quantification and de novo transcript detection.
Deconwolf is a computationally efficient and user-friendly software tool for fluorescence microscopy image deconvolution that improves the analysis of diverse fluorescence in situ hybridization methods and can handle large datasets.
scFoundation, with 100 million parameters covering about 20,000 genes, pretrained on over 50 million single-cell transcriptomics profiles, is a foundation model for diverse tasks of single-cell analysis.
Integrative and reference-informed tissue segmentation (IRIS) harnesses single-cell RNA sequencing data for the accurate identification of spatial domains in spatially resolved transcriptomics. IRIS is computationally efficient and uniquely suited for analyzing large datasets.
In targeted-illumination confocal microscopy, the combination of targeted illumination with confocal detection allows one-photon voltage imaging across large fields of view with a high signal-to-noise ratio.
Photoconversion of popular organic dyes results in blue-shifted emission and altered fluorescence lifetimes that can cause artifacts in quantitative microscopy. These can be avoided through proper labeling strategies such as using exchangeable dyes.
uiPSF (universal inverse modeling of point spread functions) offers a versatile solution for inferring accurate PSF models from images of beads and blinking fluorophores, enabling improved imaging and image processing in localization microscopy.
This resource presents a high-resolution diffusion MRI dataset of a chimpanzee brain, which should be useful for evolutionary studies of primate brain evolution.