bioRxiv

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Accurate and robust classification of Mycobacterium bovis-infected cattle using peripheral blood RNA-seq data

bioRxiv Jan 1, 2025
The zoonotic bacterium, Mycobacterium bovis, causes bovine tuberculosis (bTB) and is closely related to Mycobacterium tuberculosis, the primary cause of human tuberculosis (hTB). Bovine TB remains recalcitrant to eradication in endemic countries wher...
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A Transparent and Generalizable Deep Learning Framework for Genomic Ancestry Prediction

bioRxiv Jan 1, 2025
Accurately capturing genetic ancestry is critical for ensuring reproducibility and fairness in genomic studies and downstream health research. This study aims to address the prediction of ancestry from genetic data using deep learning, with a focus o...
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The Use of Artificial Intelligence In Magnetic Resonance Imaging of Epilepsy: A Systematic Review and Meta-Analysis

bioRxiv Jan 1, 2025
The application of artificial intelligence (AI)/machine learning (ML) to MRI can be a powerful tool to streamline clinical decision-making, yet variability amongst MRI sequences and algorithms have hindered appropriate assessment of reliability and g...
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The Brain/MINDS 3D Digital Marmoset Brain Atlas Version 2.0: Population-based Cortical Region Parcellations with Multi-Modal Standard Templates

bioRxiv Jan 1, 2025
We present the Brain/MINDS population-based 3D digital brain atlas version 2.0 (BMA2.0), a population-based 3D digital brain atlas of the common marmoset (Callithrix jacchus), designed to overcome limitations of previous single-subject atlases that a...
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Atypical collective oscillatory activity in cardiac tissue uncovered by optogenetics

bioRxiv Jan 1, 2025
Many biological processes emerge as frequency-dependent responses to trains of external stimuli. Heart rhythm disturbances, i.e. cardiac arrhythmias, are important examples as they are often triggered by specific patterns of preceding stimuli. In thi...
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Intra-genomic genes-to-genes correlation enables bacterial genome representation

bioRxiv Jan 1, 2025
The bacterial pan-genome consists of core genes shared by all members of a taxonomy and accessory genes found in only a subset. The correlation among genes within the pan-genome could advance our understanding of evolution and tackle medical challeng...
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Control of a Bi-Stable Genetic System via Parallelized Reinforcement Learning

bioRxiv Jan 1, 2025
Achieving real-time control of genetic systems is critical for improving the reliability, efficiency, and reproducibility of biological research and engineering. Yet the intrinsic stochasticity of these systems makes this goal difficult. Prior effort...
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Deep learning-based classification of complex intracellular calcium concentration patterns

bioRxiv Jan 1, 2025
Intracellular calcium ion (Ca2+) exhibits diverse dynamical behaviors, including complex oscillations such as bursting and chaos. The distinction of diverse dynamical patterns in time series data holds significant biochemical and biophysical implicat...
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Influ-BERT: A Domain-Adaptive Genomic Language Model for Advancing Influenza A Virus Research

bioRxiv Jan 1, 2025
Influenza A Virus (IAV) poses a persistent threat to global public health due to its broad host adaptability, frequent anti-genic variation, and potential for cross-species transmission. Accurate identification of IAV subtypes is essential for effect...
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Interpreting convolutional neural networks to study wide-field amacrine cell inhibition in the retina

bioRxiv Jan 1, 2025
Wide-field amacrine cells (ACs) play a unique role in retinal processing by integrating visual information across a large spatial area. Their inhibitory influence has been implicated in multiple retinal functions such as differential motion detection...
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