This work investigates MRI-based Microbial Density Stratification as a patient-level representation learning task, and Center Heatmap-driven Macro-micro modeling Network (CHM-Net) is introduced for this task, establishing the link between imaging phenotypes and microbial states through center heatmap-guided small-lesion response localization.
Abstract
Microbial density is clinically important for tumor assessment and treatment decision-making, and recent advances in deep learning suggest that it can be non-invasively inferred from multimodal MRI. In this work, MRI-based Microbial Density Stratification (MRI-MDS) is first investigated as a patient-level representation learning task, and Center Heatmap-driven Macro-micro modeling Network (CHM-Net) is introduced for this task. CHM-Net first establishes the link between imaging phenotypes and microbial states through center heatmap-guided small-lesion response localization. Building upon this, it constructs patient-level macro-micro evidence from localized heatmap responses for microbial density prediction. Experiments on the novel GBNPC 2026 dataset constructed for MRI-MDS demonstrate the effectiveness of CHM-Net, achieving superior performance over representative baselines with a 12.06% absolute ACC gain over the strongest competing result. Additionally, auxiliary validation on two 3D medical image datasets further verifies its robustness across volumetric medical image classification scenarios. The project is available at https://anonymous.4open.science/r/CHM-Net-942E/.
By embedding three-dimensional genome organization into deep-learning models, OMNIS nominates biologically coherent, context-specific drivers of progression and may guide future biomarker development and personalized therapy in precision oncology.
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A novel multi-modal deep learning model with intermediate fusion: multi-omics fusion neural network- computational cell counting (MOFUN-CCC) designed to predict absolute cell counts directly by integrating gene expression and DNA methylation data within a supervised framework, assuming that the underlying true cell components are shared across the two omics data.
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This work reports Pathway Activity Autoencoders for the multi-omics setting, which embed prior knowledge via pathway-informed architectural constraints, fostering interpretability, while preserving representational power, in the context of breast cancer.
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Per-dataset analysis reveals three reproducible regimes: probabilistic variational autoencoder variants help on the smallest datasets, deep autoencoders win on mid-scale data with multi-batch or many-type structure, and classical PCA pipelines remain competitive when linear projection already captures the dominant variation.
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TFE3‐rearranged renal cell carcinoma (TFE3‐rRCC) is a rare, aggressive subtype that predominantly affects adolescents and young adults. Its marked morphologic heterogeneity can delay recognition and downstream confirmatory testing.
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A new machine-learning framework aims to improve the success rate of computational protein design while moving away from results that reproduce sequences found in nature.