AIMC Journal:
bioRxiv

Showing 3101 to 3110 of 4993 articles

Synteny-aware functional annotation of bacteriophage genomes with Phynteny

bioRxiv Jan 1, 2025
Accurate genome annotation is fundamental to decoding viral diversity and understanding bacteriophage biology; yet, the majority of bacteriophage genes remain functionally uncharacterised. Bacteriophage genomes often exhibit conserved gene order, or ...
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Accurate and Interpretable Prediction of Antidepressant Treatment Response from Receptor-informed Neuroimaging

bioRxiv Jan 1, 2025
Conventional antidepressants show moderate efficacy in treating major depressive disorder. Psychedelic-assisted therapy holds promise, yet individual responses vary, underscoring the need for predictive tools to guide treatment selection. Here, we pr...
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Progressive Remodeling of Global Protein Interaction Networks in a Mouse Model of Tauopathy

bioRxiv Jan 1, 2025
Neurodegenerative disease is marked not just by loss of proteins or cells, but by dynamic rewiring of macromolecular interaction networks that precede and drive pathology. Here, we present the first temporally resolved, systems-scale map of multi-pro...
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scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution

bioRxiv Jan 1, 2025
Understanding how regulatory DNA elements shape gene expression across individual cells is a fundamental challenge in genomics. Joint RNA-seq and epigenomic profiling provides opportunities to build unifying models of gene regulation capturing sequen...
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Classifier-guided Deep Oscillatory Neural Networks (cDONN) for capturing both Neural Dynamics and Behavior simultaneously

bioRxiv Jan 1, 2025
Generating EEG signals alongside behavioural actions introduces substantial biological complexity, akin to an abstract model that mimics rich oscillatory brain dynamics by simultaneously producing dynamic neural activity and corresponding behavioural...
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Single Capture Quantitative Oblique Back-Illumination Microscopy

bioRxiv Jan 1, 2025
Quantitative oblique back-illumination microscopy (qOBM) has emerged as a powerful technique for label-free, 3D quantitative phase imaging of arbitrarily thick biological specimens. However, in its initial embodiment, qOBM requires multiple captures ...
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A Computational Pipeline for Physiologically Informed Calibration of Ligand Reaction-Diffusion Models Using High-Throughput Sequencing

bioRxiv Jan 1, 2025
All physiological processes fundamentally rely on continuous cellular cross-talk to maintain organization and ensure proper function. Among the various modes of cellular communication, ligand-mediated chemical signaling, in which a ligand is secreted...
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Scaling Molecular Representation Learning with Hierarchical Mixture-of-Experts

bioRxiv Jan 1, 2025
Recent advancements in large-scale self-supervised pretraining have significantly improved molecular representation learning, yet challenges persist, particularly when addressing distributional shifts (e.g., under scaffold-split). Drawing inspiration...
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Causal necessity of human hippocampus for structure-based inference in learning

bioRxiv Jan 1, 2025
When meeting new individuals or encountering known individuals in new circumstances, we intuitively map out their relationships – not merely by direct experience, but by quickly inferring new connections based on prior relational knowledge. Using a n...
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Artificial Intelligence-driven Whole-brain Cell Mapping with Highly Multiplexed In Situ Hybridization

bioRxiv Jan 1, 2025
Recent advances in three-dimensional single-cell-resolution imaging have begun to link organ-wide and cellular level research in development and disease research. Harnessing the power of whole-mount cell staining and tissue-clearing, it became possib...
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