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Related Articles from SNS
Applying Spatial Statistics to Spatial Transcriptomics Reveals Local Association Between M2-like Macrophages and Fibrosis in Diabetic Kidney Disease
Renal fibrosis is the common final pathway of chronic kidney disease (CKD), driven in part by myofibroblast-mediated extracellular matrix deposition. M2 macrophages have been implicated as a source of myofibroblasts through macrophage-to-myofibroblast transition (MMT), yet whether M2 macrophages are pro- or anti-fibrotic remains controversial, and the spatial context in which MAC-M2-fibrosis coupling occurs is unknown. Here, we applied geographically weighted regression (GWR), a spatial...
Do Foundation Models See Biology? Evaluating Attention Coherence with Spatial Transcriptomics in Glioblastoma
Announce Type: new Abstract: Whether attention maps from pathology foundation models capture genuine biology remains unknown, yet this question is critical for clinical trust and regulatory approval. We propose a spatial transcriptomics-based framework for orthogonal, hypothesis-free evaluation of attention and apply it to five pathology foundation models (CONCH v1.5, UNI v2, Virchow2, GigaPath, H-Optimus-1) and a ResNet50 baseline. Using attention-based multiple instance learning, we train...
Spatial Transcriptomics Reveals a Conserved Border Niche and Etiology-Associated Immune Rewiring in Hepatocellular Carcinoma
Background and Aims: The tumor-stroma interface in hepatocellular carcinoma (HCC) harbors critical intercellular interactions that shape immune evasion and treatment response, yet its spatial architecture remains poorly characterized across etiologies. Whether hepatitis B virus (HBV)-related and non-B non-C (NBNC) HCC share conserved border niche features or exhibit etiology-specific microenvironment programs is unknown.