AIMC Journal:
bioRxiv

Showing 1311 to 1320 of 4956 articles

MICAFlow: Fast and Robust MRI Preprocessing Bridging Research Neuroimaging and Clinical Practice

bioRxiv May 29, 2026
MICAFlow is a fully automated MRI preprocessing pipeline designed to translate advanced neuroimaging workflows from research into routine clinical practice. The pipeline emphasizes speed, robustness, and ease of use, focusing on structural and diffus...
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A Multi-Agent RAG Framework for Biomedical Literature Analysis

bioRxiv May 29, 2026
Background: The biomedical literature is expanding at an unprecedented rate, with over 4,000 new articles indexed on PubMed each day. Clinicians and researchers frequently lack the time to review this volume before making decisions. Retrieval-Augment...
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Multiple versus pairwise sequence alignments for protein phylogenetics using foundation models

bioRxiv May 29, 2026
Phylogenetic inference is a common task in molecular and evolutionary biology and has conventionally required a multiple sequence alignment (MSA), a statistical model of amino acid substitutions, and an optimality principle. Recently, global models o...
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13C flux ratio analysis with FRAPPPE reveals differences in metabolic fluxes between gut Bacteroidota and Escherichia coli

bioRxiv May 29, 2026
Gut bacteria shape the metabolism of their host and play an important role in human health. However, systems biology approaches to study their intracellular metabolic fluxes are largely underdeveloped. We present an experimental and computational wor...
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Design and structure of protein cages based on helical fusion and machine learning

bioRxiv May 29, 2026
Self-assembling protein cages are versatile nanoscale architectures with broad applications in drug delivery, vaccine development, and structural biology. Historically, two main strategies have been used to construct such cages: genetic fusion of oli...
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Bimodal masked language modeling for bulk RNA-seq and DNA methylation representation learning

bioRxiv May 29, 2026
Oncologists are increasingly relying on multiple modalities to model the complexity of diseases. Within this landscape, transcriptomic and epigenetic data have proven to be particularly instrumental and play an increasingly vital role in clinical app...
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ModCRE-NN: Interpretable Deep Learning Harnesses Structural and Evolutionary Synergy to Predict Transcription Factor Binding Specificity

bioRxiv May 29, 2026
We present ModCRE-NN, a machine-learning framework and server for predicting transcription-factor (TF) DNA-binding motifs through the integration of structural and evolutionary information. The method combines structure-derived Position Weight Matric...
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Physical activity promotes longitudinal white matter brain adaptations that support fluid intelligence with age

bioRxiv May 29, 2026
The aging population continues to grow, and along with it the need to better understand the unique characteristics of the aging brain. Despite the cortical thinning and myelin degeneration that occurs in later life, many individuals are resilient to ...
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Deconvolution improves cryo-EM maps

bioRxiv May 29, 2026
With technological advancements in recent years, single particle cryogenic electron microscopy (cryo-EM) has become a major methodology for structural biology. Structure determination by single particle cryo-EM is premised on randomly orientated part...
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The heritability of reinforcement learning parameters and their association with anxiety

bioRxiv May 28, 2026
Impaired learning that both novel and previously dangerous stimuli are safe (safety and extinction learning, respectively) are long standing, robust, and heritable features of anxiety disorders, representing potential endophenotypes. The computationa...
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