bioRxiv

Showing 4021 to 4030 of 5016 articles

The forecasted mean of 80 percent of wild populations and communities shows no change, and why

bioRxiv Jan 1, 2025
Broad-scale shifts in biodiversity demand a deeper understanding of both historical and future time trends across the Tree of Life. Retrospective analyses indicate that some groups, such as birds, fishes and insects, have experienced significant decl...
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Intelligent Tool Orchestration for Rapid Mechanistic Model Prototyping: MCP Servers as AI-Biology Interfaces

bioRxiv Jan 1, 2025
The construction of multicellular mechanistic models in systems biology typically requires months of literature research, programming expertise, and deep knowledge of specialized computational tools. Here we present intelligent tool orchestration thr...
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Exponential Map Models as an Interpretable Framework for Generating Neural Spatial Representations

bioRxiv Jan 1, 2025
A fundamental challenge in neuroscience and AI is understanding how physical space is mapped into neural representations. While artificial neural networks can generate brain-like spatial representations, such as place and grid cells, their “black-box...
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Asymmetric Social Representations in the Prefrontal Cortex for Cooperative Behavior

bioRxiv Jan 1, 2025
Cooperation is a hallmark of social species, enabling individuals to achieve goals that are unattainable alone. Across species, cooperative behaviors are often organized by distinct social roles such as leaders and followers, yet the neural mechanism...
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Sensory Compression as a Unifying Principle for Action Chunking and Time Coding in the Brain

bioRxiv Jan 1, 2025
The brain seamlessly transforms sensory information into precisely-timed movements, enabling us to type familiar words, play musical instruments, or perform complex motor routines with millisecond precision. This process often involves organizing act...
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Hyperbolic Wavelet Interaction Network (HyWinNet): Multi-Scale Geometric Learning for Interpretable Protein-Protein Interaction Prediction

bioRxiv Jan 1, 2025
Understanding the multi-scale organization of protein-protein interactions (PPIs) is fundamental to deciphering cellular signaling, allosteric regulation, and disease mechanisms, yet existing computational approaches fail to simultaneously resolve at...
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Species-agnostic and Salmonella-specific Models for Antimicrobial Resistance Prediction Using FCGR and ResNet-18

bioRxiv Jan 1, 2025
Antimicrobial resistance (AMR) prediction from bacterial genomes remains a major challenge for clinical microbiology and surveillance. We developed deep learning models based on Frequency Chaos Game Representation (FCGR) and a ResNet-18 architecture ...
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Single-and double-strand circulating DNA fragmentomics for enhanced cancer detection performance

bioRxiv Jan 1, 2025
In early detection of cancer, the use of circulating cell-free DNA (cirDNA) obtained from blood samples is notable for its minimally invasive nature. We have developed an algorithm designed to discriminate cancer patients and healthy individuals base...
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A lightweight, physics-based, sensor-fusion filter for real-time EEG denoising and improved downstream AI classification

bioRxiv Jan 1, 2025
Physiological time-series data, like electroencephalography (EEG), are vulnerable to motion, ocular, and muscle artifacts that hinder real-time inference and bias offline analyses. We present the Minds AI Filter: a lightweight, physics-based, sensor-...
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A Computational Perspective on the No-Strong-Loops Principle in Brain Networks

bioRxiv Jan 1, 2025
Cerebral cortical networks in the mammalian brain exhibit a non-random organization that systematically avoids strong reciprocal projections, particularly in sensory hierarchies. This “no-strong-loops” principle is thought to prevent runaway excitati...
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