AIMC Journal:
bioRxiv

Showing 2761 to 2770 of 4979 articles

ADSI-MIMO: Adaptive stain imputation with multi-input and multi-output learning for multiplex immunofluorescence imaging

bioRxiv Jan 1, 2025
Multiplex immunofluorescence (mIF) imaging plays a crucial role in studying multiple biomarkers and their interactions within the tumour microenvironment. However, acquiring mIF images that include all desired biomarkers presents significant challeng...
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GLM-Prior: a nucleotide transformer model reveals prior knowledge as the driver of GRN inference performance

bioRxiv Jan 1, 2025
Gene regulatory network inference depends on high-quality prior-knowledge, yet curated priors are often incomplete or unavailable across species and cell types. We present GLM-Prior, a genomic language model fine-tuned to predict transcription factor...
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smDeepFLUOR: Single-Molecule Deep Learning Fluorescence Classification

bioRxiv Jan 1, 2025
Fluorescence intensity variation has long served as a primary readout for monitoring biological events. However, single-fluorophore signals arising from distinct molecular events often exhibit similar intensity profiles, making further classification...
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f-BGM enables fungi-specific genome mining in high accuracy and interpretability

bioRxiv Jan 1, 2025
Emerging artificial intelligence (AI)-based genome mining methods have revolutionized the paradigm of bacterial secondary metabolite (SM) discovery. Fortunately, recent data accumulation of fungal biosynthetic gene clusters (BGC) fairly offers opport...
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Detection, communication, and individual identification with deep audio embeddings: A case study with North Atlantic right whales

bioRxiv Jan 1, 2025
Anthropogenic noise has increased ambient sound levels across the globe, both underwater and on land. Among its many negative impacts, heightened noise can impair communication in vocal animals through acoustic masking. Conceptually, noise reduces th...
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StruCloze: A Unified Framework for Backmapping and Inpainting of Biomolecules

bioRxiv Jan 1, 2025
Atomistic resolution is essential for understanding biomolecular structure and function, yet coarse-grained (CG) models remain indispensable for simulating large and dynamic systems. Reconstructing accurate all-atom structures from CG representations...
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Exploring the genetic landscape of ciprofloxacin-induced DNA supercompaction in Escherichia coli

bioRxiv Jan 1, 2025
DNA-damaging antibiotics like ciprofloxacin induce extensive double-strand breaks in Escherichia coli, triggering the SOS response and leading to DNA supercompaction. To uncover genes involved in this process beyond the previously identified core fac...
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MolUNet++: Adaptive-grained Explicit Substructure and Interaction Aware Molecular Representation Learning

bioRxiv Jan 1, 2025
Molecular representation learning is a critical task in AI-driven drug development. While graph neural networks (GNNs) have demonstrated strong performance and gained widespread adoption in this field, efficiently extracting and explicitly analyzing ...
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Implementation and Evaluation of Support Vector Machine-Based Models for Cancer Detection Using Multi-Omic Data: A Systematic Review

bioRxiv Jan 1, 2025
Cancer is a major source of mortality and morbidity all over the world that has caused more than 19 million new cases and nearly 10 million deaths in 2020. Although there are so many advances in cancer diagnosis, previous methods such as imaging and ...
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Large Language Model-assisted text mining reveals bacterial pathogen diversity

bioRxiv Jan 1, 2025
Compiling and characterising the diversity of bacterial pathogens of humans is a critical challenge to tackle infection risk, especially in the context of global antimicrobial resistance, climate change, and changing demographics. Here, we present a ...
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