bioRxiv

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Predictive models of the genetic bases underlying budding yeast fitness in multiple environments

bioRxiv Jan 1, 2025
The ability of organisms to adapt and survive depends on the effects of genes and the environment on fitness. However, the multigenic nature of fitness traits and genotype-by-environment interactions hinder our ability to understand the genetic basis...
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Inferring learning rules during de novo task learning

bioRxiv Jan 1, 2025
Identifying the learning rules that govern behavior is a central problem in neuroscience. While reinforcement learning (RL) offers a unifying theoretical framework, most empirical studies of animal learning behavior have focused on non-stationary env...
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KG-Bench: Benchmarking Graph Neural Network Algorithms for Drug Repurposing

bioRxiv Jan 1, 2025
Drug repurposing leverages existing drugs for new indications, accelerating drug development. Computational methods integrating diverse biological and chemical data can systematically prioritize repurposing candidates, but standardized benchmarks for...
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Predicting enhancer-gene links from single-cell multi-omics data by integrating prior Hi-C information

bioRxiv Jan 1, 2025
Enhancers play an important role in transcriptional regulation by modulating gene expression from distal genomic locations. Although single-cell ATAC and RNA sequencing (scATAC/RNA-seq) data have been leveraged to infer enhancer-gene links, establish...
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AlveolEye: Rapid and precise lung morphometry guided by computer vision

bioRxiv Jan 1, 2025
Rigorous and reproducible evaluation of lung tissue under different conditions is necessary to interpret development, injury, and pharmacologic interventions. Common histological measurements in the distal lung include mean linear intercept (MLI) as ...
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Representational Similarity and Pattern Classification of Fifteen Emotional States Induced by Movie Clips and Text Scenarios

bioRxiv Jan 1, 2025
Theoretical models emphasize that categorical factors, dimensional factors, or their combination may define the semantic space organization of emotion representations. While recent behavioral work has applied innovative multivariate methods for testi...
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Highly Adaptive Conductive Polymer Electronics Enhance Neural Data and Learning Accuracy

bioRxiv Jan 1, 2025
Human skin, the body’s largest organ, plays a vital role in sensing and transmitting neuronal, mechanical, and biochemical signals, making it an essential non-invasive interface for health monitoring, rehabilitation, and human-machine interaction. Ho...
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Benchmarking resting state fMRI connectivity pipelines for classification: Robust accuracy despite processing variability in cross-site eye state prediction

bioRxiv Jan 1, 2025
The rapid evolution of machine learning (ML) methods has yielded promising results in human brain neuroscience. However, the reproducibility of ML applications in neuroimaging remains limited, challenging the generalizability of inferences to broader...
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Cross-species connectome comparisons reveal the network attributes of memory capacity and time series prediction

bioRxiv Jan 1, 2025
The brain’s connectome provides a powerful blueprint for designing efficient neural networks, yet the impact of incorporating its intricate, non-random architecture into machine learning models remains underexplored. Here, we integrate empirical stru...
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Adaptive Feature-Weighted Stacking Ensemble for Short-Term Risk Prediction of Prolonged Length of Stay in Elderly Trauma Patients

bioRxiv Jan 1, 2025
The Adaptive Feature-Weighted Stacking Ensemble (AFWSE) model is presented here as a new machine learning method that provides staged prediction of prolonged length of stay in trauma patients. We used a retrospective dataset of elderly trauma patient...
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