AIMC Journal:
bioRxiv

Showing 1291 to 1300 of 4956 articles

Trustworthy ML/AI for Aging Clocks: Preventing Systematic Prediction Bias in Biological Age Estimation

bioRxiv Jun 1, 2026
Machine learning (ML)- and artificial intelligence (AI)-based aging clocks are increasingly used to quantify physiological and molecular aging from omics and medical imaging data as distinct from chronological age. Here, we characterize a fundamental...
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Ultra-efficient High Resolution 3D Reconstruction of Spatial Omics Data with Neural Transcriptomic Field

bioRxiv Jun 1, 2026
Biological tissues are inherently three-dimensional (3D) ecosystems where spatial architecture dictates cellular function. While spatial omics technologies have revolutionized molecular profiling, they are largely restricted to isolated two-dimension...
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Eyewire II - A connectomic resource for resolving cell types and circuits of the mouse retina

bioRxiv Jun 1, 2026
Comprehensive wiring diagrams from electron microscopy (EM) are a powerful tool to understand the inner workings of the brain. The retina is an easily accessible part of the brain that performs complex visual computations. Its thin, layered structure...
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From unsupervised clustering to atlas-guided annotation in cohort-scale spatial omics with HiCAT

bioRxiv May 31, 2026
Pathologist-annotated tissue regions provide a fundamental reference for examining spatial omics data, yet such annotations are available for a limited number of samples due to the substantial manual effort required. Moreover, these annotations are d...
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Instance-Wise Contrastive Graph Neural Network Enables the Discovery of Novel Aedes aegypti Larvicidal Compounds

bioRxiv May 31, 2026
Aedes aegypti remains a major arboviral vector, making larval control a critical strategy to reduce mosquito populations. However, resistance to commercial larvicides has reduced the long-term effectiveness of current interventions, reinforcing the n...
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Cooperative FOXA1-HNF4A binding emerges from motif spacing and nucleosome architecture

bioRxiv May 30, 2026
The pioneer factor hypothesis posits that specialized transcription factors access nucleosomal DNA to enable binding of secondary factors, implying a hierarchical mechanism of chromatin opening. However, recent evidence indicates that cooperative bin...
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Entropy Fusion DNA: Alignment-Free Gene Fusion Detection through Entropy and Mutual Information Descriptors

bioRxiv May 30, 2026
Gene fusions are clinically relevant genomic alterations and key cancer biomarkers. Their computational detection remains dominated by alignment-based pipelines, whose reliance on read mapping, reference annotations, and heuristic filtering makes the...
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Comparison of AI protein structure ensemble prediction tools

bioRxiv May 30, 2026
Multiple AI prediction tools for protein structural ensembles have recently been released, building on the much heralded advances from AlphaFold, large language models, and other machine-learning approaches. Here we report on a comparison of several ...
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Explainable machine learning reveals an RBP regulatory logic of exon skipping

bioRxiv May 30, 2026
RNA binding proteins (RBPs) regulate the life cycle of an mRNA, often through RBP-RNA interactions. This life cycle includes splicing, whereby the intronic sequence of a pre-mRNA is removed and the exons are joined together. However, the patterns of ...
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A pilot assessment of avian communities and soundscapes along an Amazonian fluvial corridor

bioRxiv May 30, 2026
Quantifying biodiversity patterns in remote Amazonian ecosystems remains constrained by the limitations of traditional field surveys. We combined passive acoustic monitoring (PAM), machine learning, and ecoacoustic metrics to assess the taxonomic and...
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