AIMC Journal:
bioRxiv

Showing 1211 to 1220 of 4956 articles

Overestimating zero-shot fitness prediction: Broad benchmarks mask local failures and practical limitations

bioRxiv Jun 7, 2026
Deep learning models have emerged as promising tools for navigating mutational landscapes in protein engineering. These models can be used to predict mutation fitness without the need for task-specific training, a process known as zero-shot predictio...
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Recipient cell identity governs intracellular transport and membrane interactions of extracellular vesicles across species

bioRxiv Jun 7, 2026
Extracellular vesicles (EVs) function as a natural communication system, enabling transfer of biomolecules between cells. Although EVs are produced by nearly all cell types and have shown promise as therapeutic agents, our understanding of how EVs fr...
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Single-Cell Multi-Omics Dissection of Malignant Evolutionary Mechanisms and Construction of a Prognostic Model for Clear Cell Renal Cell Carcinoma

bioRxiv Jun 6, 2026
Clear cell renal cell carcinoma (ccRCC) exhibits pronounced heterogeneity across WHO histological grades, yet systematic single-cell multi-omics studies characterizing these transitions remain limited. We integrated scRNA-seq and scATAC-seq data acro...
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Aerial imagery and deep learning accurately estimate maize foliar disease severity

bioRxiv Jun 6, 2026
Southern leaf blight (SLB) is a foliar disease of maize (Zea mays L.) caused by the necrotrophic fungal pathogen Cochliobolus heterostrophus. Genetic resistance is the most effective control method for SLB. Developing disease resistant maize lines re...
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HOPE: Interpretable Histology Analysis with Spatial Omics-Derived Signatures for Precision Oncology

bioRxiv Jun 6, 2026
Hematoxylin and eosin (H&E) stained images are fundamental clinical tools for disease assessment. However, even with advanced computational models, their prognostic capabilities remain limited. Spatial omics characterizes tumor microenvironments (TME...
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Temporal Biodynamics: An AI Platform for Identification of Stage-Relevant Targets and Biomarkers

bioRxiv Jun 6, 2026
Temporal modeling of disease progression is poised to revolutionize the process of target identification, leading to better characterization of and intervention at the critical early stages of chronic conditions. Temporal Biodynamics is an artificial...
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Ignet 2.0 and Vignet: An Ontology-Driven Web Platform for Biomedical Gene Interaction Discovery and Visualization

bioRxiv Jun 6, 2026
Background: The expansion of biomedical literature demands systematic ontology-guided discovery of gene interactions, vaccine mechanisms, drug associations, and adverse events. Existing platforms such as STRING, DisGeNET, and PubTator fall short of p...
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TetraFuse: A Synergistic Four-Dimensional Dynamic Fusion Framework for Efficient and Robust Medical Image Classification

bioRxiv Jun 6, 2026
Accurate and robust classification of medical pathology images is pivotal for computer-aided diagnosis. However, the deployment of deep learning models in high-throughput clinical screening faces a fundamental challenge: the trade-off between diagnos...
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Compositional and interpretable representation of histology using AI foundation models and sparse autoencoders

bioRxiv Jun 6, 2026
Light microscopy of tissue sections stained with hematoxylin and eosin (H&E) has been the foundation of histopathology for over 150 years and remains essential for diagnosis and research. The development of high-plex spatial profiling approaches able...
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Cell type-centric interaction networks define spatial architecture of intrahepatic cholangiocarcinoma

bioRxiv Jun 6, 2026
Tumor spatial organization critically shapes disease progression and therapeutic response, yet remains poorly defined. Intrahepatic cholangiocarcinoma (iCCA), a rare and aggressive liver malignancy with extensive stromal and immune remodeling, provid...
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