bioRxiv

Showing 4811 to 4820 of 5021 articles

PRSNet-2: End-to-end genotype-to-phenotype prediction via hierarchical graph neural networks

bioRxiv Jan 1, 2025
The emergence of large-scale biobanks has opened unprecedented opportunities for the development of data-driven approaches, especially deep learning-based methods, for genotype-to-phenotype (G2P) prediction. However, designing an end-to-end framework...
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Sensory integration, temporal prediction and rule discovery reflect interdependent inference processes

bioRxiv Jan 1, 2025
Deciphering the structure of variable sensory input is key to building an accurate model of one’s environment. Humans can integrate stimulus sequences to estimate their sensory statistics, predict the timing of upcoming stimuli, but also discover rul...
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Reward-induced endogenous pain inhibition scales with action-outcome certainty in humans

bioRxiv Jan 1, 2025
Endogenous pain modulation is thought to encompass a crucial evolutionary purpose in guiding decision-making away from harm. This is well exemplified by the idea that mechanisms of learning through error-correction and endogenous pain modulation are ...
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Covary: A translation-aware framework for alignment-free phylogenetics using machine learning

bioRxiv Jan 1, 2025
In large-scale phylogenetic analysis, incorporating translation awareness is critical to account for the genotypic and phenotypic dimensions underlying biological diversification. Covary is a machine learning-based framework that analyzes, clusters, ...
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Dataset Documentation for Responsible AI: Analysis of Suitability and Usage for Health Datasets

bioRxiv Jan 1, 2025
Artificial Intelligence (AI) is rapidly transforming healthcare, but also raising concerns about algorithmic biases that mostly stem from the training data. It is widely supported that transparent dataset documentation is key to enabling responsible ...
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Integrative spatial multi-omics reveals prognostic tumor niches in female genital tumors

bioRxiv Jan 1, 2025
Female genital tumors (FGTs), including ovarian, endometrial, and cervical cancers, pose a major global health challenge, yet their spatial and molecular determinants of progression and therapy resistance remain poorly understood. Here we present a l...
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ProteinSight: A Volumetric Deep Learning Model for Carotenoid-Binding Site Prediction

bioRxiv Jan 1, 2025
Carotenoproteins play essential roles across all domains of life, yet identifying them from sequence or structure remains a significant challenge due to the lack of conserved motifs. To address this gap, we present ProteinSight, a deep learning pipel...
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SIRP: A Self-Supervised Fluorescence Denoising method with Implicit Representation Priors

bioRxiv Jan 1, 2025
Fluorescence microscopy plays a critical role in live-cell imaging, yet the captured images often suffer from significant noise due to limited excitation intensity and constrained exposure times. Deep learning has emerged as a powerful solution for i...
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High-resolution MRI Guided Whole Mouse Brain Cell Type Atlas using Deep Learning

bioRxiv Jan 1, 2025
Cell types represent groupings of cells defined by shared anatomical and functional properties. Traditional mouse brain cell atlases rely heavily on single-cell sequencing, which provides valuable molecular detail but lacks whole-brain, isotropic res...
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Mimyr: Generative modeling of missing tissue in spatial transcriptomics

bioRxiv Jan 1, 2025
Spatial transcriptomics enables the study of how gene expression is organized across tissues, revealing how cells interact within their native microenvironments in health and disease. However, tissue damage during sectioning and the allocation of int...
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