3687 papers
The paper introduces SpaOT, a robust spatial multi-omics integration framework grounded in a theoretically justified semi-metric optimal transport formulation that enables accurate alignment, representative tissue barycentering, and stable biological comparisons across diverse samples, resolutions, and modalities despite variations in cellular composition and measurement technologies.
This study confirms that *Isoberlinia doka* in Benin consistently forms ectomycorrhizal associations with diverse fungal communities, revealing significantly higher colonization rates in humid Sudano-Guinean zones compared to drier Sudanian areas and establishing a foundational reference for future woodland restoration efforts.
RDiffusion is a discrete-diffusion-based generative transformer that outperforms existing methods in designing diverse, functional RNA sequences and successfully identified a novel therapeutic microRNA mimic for osteoarthritis, establishing a new AI-driven paradigm for RNA discovery.
Using a subject-specific heart-rate-dependent Master Curve framework in canine models, this study demonstrates that β-adrenergic blockade fundamentally alters the intrinsic heart rate–variability relationship rather than merely shifting the operating point, proving that heart rate variability lacks unique physiological meaning without accounting for concurrent heart rate.
This study reveals that African suids tolerate African swine fever virus infection through coordinated immune regulation and limited monocyte vulnerability, whereas Eurasian suids succumb to acute lethal disease due to extensive monocyte infection and severe inflammatory responses.
This study utilizes an interpretable machine learning framework on resting-state fMRI data to identify a distributed, predominantly hypoconnected brain network pattern associated with autism spectrum disorder, which shows significant spatial correspondence with autism-risk gene expression and specific developmental neuronal perturbation signatures.
This study identifies a BRD4-dependent super-enhancer that drives ZMYND8 expression to sustain neuroblastoma growth via a CDK6-associated transcriptional program, establishing ZMYND8 as a therapeutic vulnerability and validating HMN-176 as a potential inhibitor of this axis.
This study integrates large-scale genomic analysis of over 60,000 *Escherichia coli* genomes with causal inference and structural modeling to demonstrate that diversity in the *bla*<sub>TEM</sub> promoter region, beyond coding sequence variations, significantly influences β-lactam resistance phenotypes.
The paper introduces spaGFM, a scalable graph foundation model that leverages random walks and self-supervised learning to generate robust, transferable representations of spatial transcriptomics data, enabling the analysis of complex tissue organization and functional consequences across diverse biological contexts.
This paper challenges the traditional view that aerobic glucose metabolism in *Saccharomyces cerevisiae* involves simultaneous direct respiration and fermentation at high glucose concentrations, proposing instead that glucose is initially fully fermented to ethanol with subsequent ethanol oxidation, and outlines a quantitative isotope-tracing experimental design to test this hypothesis.