miOPM achieves high-resolution, diffraction-limited imaging across a refractive index range of 1.33 to 1.51, supporting diverse biological specimens and scales.
Nature Methods
Nature Portfolio · Genomics & Bioinformatics · ISSN 1548-7091, 1548-7105
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Recent advances in fluorescent proteins and biosensors have significantly improved photostability, wavelength range, and multiplexing capabilities, exemplified by mScarlet.
AmpliconSuite accurately predicts ecDNA and amplification modes in 72 models and reveals ecDNA-mediated oncogene co-amplification in 6,506 pan-cancer samples.
- Open access
MassNet is a billion-scale AI-ready mass spectral corpus containing 1.5 billion spectra across 35 species, enabling scalable deep learning in proteomics.
- Open access
LoL-align is significantly more sensitive than TM-align and Dali in detecting remote homologs, with 5-20 times faster alignment speed on benchmark datasets.
- Open access
rsmiRFPnano, a compact cyanobacteriochrome-derived probe under 19 kDa, enables high-resolution photoacoustic imaging of inflammation and intracellular antigens in vivo.
Tangermeme enables extraction of human-interpretable cis-regulatory patterns from deep learning models with high efficiency.
- Open access
VIMA identifies disease-associated spatial features with greater flexibility and precision using an ensemble of variational autoencoders in spatial molecular data.
Solid-state nanopores are poised to become essential tools for studying macromolecular superstructures in biological and synthetic systems.
A two-step machine-learning method enables transferable prediction of small-molecule retention times across chromatographic conditions without target-system training data.
- Open access
Spatial Hi-C reveals 3D chromatin structures in mouse brain tissues with high fidelity and 10-μm resolution, linking chromatin topology to spatial microdomains.
Spatial-ATAC-Hi-C reveals distinct chromatin architecture and gene regulation in neuronal and tumor tissues with spatial resolution in mammalian brains.
Confinement force microscopy reveals that cells respond to spatial confinement with a two-phase stress increase involving passive compression and active contractility.
- Open access
SPIFFI achieves instant super-resolution and six-dimensional imaging from a single exposure, enabling real-time biological observations beyond the diffraction limit.
- Open access
SVPG achieves superior structural variant detection accuracy and nearly tenfold faster pangenome graph augmentation compared to existing methods across 20 samples.
SPLENDID improves polygenic risk prediction accuracy for non-European and admixed populations without requiring ancestry labels in large-scale biobank data.
CytoVI accurately models antibody-based single-cell data, revealing proteins linked to immunoglobulin class-switching and disease-associated T cell states in B cell non-Hodgkin lymphoma.
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WILD enables long-term, multimodal neural and behavioral recordings with real-time closed-loop interventions in freely moving mice, overcoming previous technological limitations.
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