bioRxiv

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Mapping human microglial morphological diversity via handcrafted and deep learning-derived image features

bioRxiv Jan 1, 2025
Microglia play critical roles in brain health and disease by adopting a spectrum of dynamic activation states. However, capturing this continuous heterogeneity in a scalable way remains a major challenge. To address this, we developed an imaging and ...
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High-throughput cell-free profiling of SARS-CoV-2 RBD variants enables rapid and quantitative in vitro affinity landscape mapping

bioRxiv Jan 1, 2025
SARS-CoV-2 variants continue to threaten public health, necessitating the study of cumulative and epistatic effects of receptor-binding domain (RBD) mutations on antibody evasion. We present a high-throughput platform combining cell-free protein synt...
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Overcoming sensory-memory interference in working memory circuits

bioRxiv Jan 1, 2025
Memories of recent stimuli are crucial for guiding behavior, but the sensory pathways responsible for encoding these memories are continuously bombarded by new sensory experiences. How the brain overcomes interference between sensory input and workin...
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Early detection of ampicillin susceptibility in Enterococcus faecium with MALDI-TOF MS and machine learning

bioRxiv Jan 1, 2025
Enterococcus faecium can cause severe infections and is often resistant to the first-line antibiotic ampicillin. Consequently, clinicians usually prescribe broad-spectrum antibiotics, promoting the selection of multidrug-resistant bacteria. In this s...
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Generative design of synthetic gene circuits for functional and evolutionary properties

bioRxiv Jan 1, 2025
In the past decades, a wide suite of design tools for biological systems have been developed, but using these to create biotechnologies that achieve reliable and predictable behaviour remains challenging. Modelling approaches have enabled researchers...
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DART: Deep learning for the Analysis and Reconstruction of Transcriptional dynamics from live-cell imaging data

bioRxiv Jan 1, 2025
Transcriptional bursting, characterized by stochastic switching between promoter states, underlies cell-to-cell variability in gene expression. Accurately inferring promoter activity from live-cell imaging data remains challenging because the fluores...
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Multi-Target Mechanisms of Xiaobi Plaster in Lumbar Disc Degeneration: Insights from Network Pharmacology and Bioinformatics Analyses

bioRxiv Jan 1, 2025
Lumbar disc degeneration (LDD) is characterized by chronic inflammation, oxidative stress, and extracellular matrix (ECM) breakdown, yet current therapies provide only symptomatic relief. Xiaobi Plaster (XBG), a traditional Chinese transdermal herbal...
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Illuminating the Druggable Proteome with an AI Protein Profiling Platform

bioRxiv Jan 1, 2025
Creating a proteomewide atlas of reversible and covalent protein-ligand binding sites would transform our understanding of protein functions and accelerate therapeutic discovery; however, current approaches face significant challenges. Chemical prote...
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Learning Residual-based Biomarkers of Cognitive Health via Self-Supervised Learning on EEG State Transitions

bioRxiv Jan 1, 2025
Deep learning (DL) models have achieved impressive performance in EEG-based prediction tasks, but they often lack interpretability, limiting their clinical utility. In this study, we introduce a novel self-supervised learning (SSL) framework inspired...
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A Novel 3D Visualization Method in Mice Identifies the Periportal Lamellar Complex (PLC) as a Key Regulator of Hepatic Ductal and Neuronal Branching Morphogenesis

bioRxiv Jan 1, 2025
The liver’s microenvironment consists of interconnected vascular, biliary, and neural networks that regulate homeostasis and disease progression. However, the lack of high-resolution 3D visualization hinders our understanding of their interactions in...
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