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bioRxiv

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GIN-CRC-Pareto: A graph-based Pareto-optimal multi-task learning framework to identify miRNA-target interactions in colorectal cancer

bioRxiv Jan 1, 2025
Colorectal cancer (CRC) ranks as the third highest incidence among malignancies in humans and the second most common cause of cancer-related mortality in the United States. Accumulating evidence has established microRNAs (miRNAs) as critical regulato...
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SkeletAge: Transcriptomics-based Aging Clock Identifies 26 New Targets in Skeletal Muscle Aging

bioRxiv Jan 1, 2025
Identifying the set of genes that regulate baseline healthy aging – aging that is not confounded by illness – is critical to understating aging biology. Machine learning-based age-estimators (such as epigenetic clocks) offer a robust method for captu...
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Machine learning assisted classification of cell and brain penetrating peptides

bioRxiv Jan 1, 2025
Crossing the blood–brain barrier (BBB) remains a major obstacle for central nervous system therapeutics. Short peptides have emerged as promising vectors, including cell-penetrating peptides (CPPs) and brain-penetrating peptides (BPPs). However, the ...
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Integrated histopathologic modeling of detailed tumor subtypes and actionable biomarkers

bioRxiv Jan 1, 2025
Accurate cancer subtyping with accompanying molecular characterization is critical for precision oncology. While machine learning approaches have been applied to both digital pathology and cancer genomics, previous work has been limited in sample siz...
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Multivariate pattern analysis reveals resting-state EEG biomarkers in fibromyalgia

bioRxiv Jan 1, 2025
Fibromyalgia (FM) involves widespread musculoskeletal pain and hypersensitivity, often accompanied by neurological, cognitive, and affective disturbances. Resting-state (RS) electroencephalography (EEG) studies have revealed abnormal brain activity i...
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Predicting flowering time using integrated morphophysiological and genomic data with machine learning models

bioRxiv Jan 1, 2025
Indigenous Cannabis Sativa populations have adapted to diverse environments, resulting in genetic and phenotypic diversity. Understanding the mechanisms underlying flowering time variation is crucial for optimizing cultivation and breeding. This stud...
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Artificial Intelligence for Genomics and Bioinformatics: Is Africa Lagging Behind?

bioRxiv Jan 1, 2025
Africa’s diverse pathogen and human genetics present significant opportunities for genomic medicine research using artificial intelligence (AI). We surveyed 250 genomics researchers across 46 of the 55 African Union Member States to assess the state ...
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GeoGAT-site: A Face-Centered Geometric Graph Attention Network for Protein-Protein Interface Prediction

bioRxiv Jan 1, 2025
Protein-protein interactions (PPIs) underpin the intricate machinery of cellular life, orchestrating processes from signal transduction to metabolic regulation, yet their precise interface prediction remains a cornerstone challenge in structural biol...
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DynVision: A Toolbox for Biologically Plausible Recurrent Convolutional Networks

bioRxiv Jan 1, 2025
Convolutional Neural Networks (CNNs) have demonstrated remarkable success in image recognition and exhibit conceptual similarities to the primate ventral visual pathway. Adding recurrence opens the door to exploring temporal dynamics and investigatin...
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Correctness is its own reward: bootstrapping error signals in self-guided reinforcement learning

bioRxiv Jan 1, 2025
Reinforcement learning (RL) offers a compelling account of how agents learn complex behaviors by trial and error, yet RL is predicated on the existence of a reward function provided by the agent’s environment. By contrast, many skills are learned wit...
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