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Single-cell RNA sequencing (scRNA-seq) has transformed the resolution of cellular heterogeneity, offering insights into dynamic biological processes from tumor evolution to immune regulation. However, its clinical translation is limited by challenges such as data sparsity, …
Read PDFGranulomas are organized inflammatory lesions formed in response to persistent stimuli such as infections. Murine infection with Leishmania donovani results in granulomas in the liver, seeded by infected Kupffer cells, and serves as a well-defined …
Read PDFColon cancer (CC), a significant global health burden with high incidence and mortality, is often accompanied by an immunosuppressive tumor microenvironment (TME) that limits the efficacy of immunotherapy. Immunoglobulin superfamily member 9 (IGSF9), a cell …
Read PDFThe maternal-fetal interface represents a dynamic immunological frontier where pregnancy outcomes are determined by the delicate balance between host defense and microbial pathogenesis. Vertical transmission of pathogens across the placental barrier can lead to devastating …
Read PDFAdamantinomatous craniopharyngioma (ACP), a benign yet highly recurrent and therapy-resistant intracranial tumor, remains a considerable clinical challenge because of its complex pathological structure, infiltrative growth, and limited treatment options. Here, integrated spatially resolved multiomics is …
Read PDFExtensive studies have shown that cerebrovascular dysfunction is a critical factor in the onset and progression of Alzheimer's disease (AD). Neurovascular unit (NVU) is impaired in AD brains, including damage of tight junction between endothelial …
Read PDFRNA velocity provides a powerful scope for understanding cell state dynamics by modeling spliced and unspliced mRNA captured by single-cell or spatial transcriptomic technologies. However, prevailing methods relying on restrictive kinetic assumptions often fail in …
Read PDFCardiovascular disease remains a leading cause of global mortality despite advances in revascularization, pharmacotherapy, and risk stratification. Immune responses to cardiovascular damage are neither temporally linear nor spatially homogeneous; they evolve across overlapping phases and …
Read PDFTissues are organized through the assembly of diverse cell types into multicellular structures that exhibit hierarchical spatial organization. We present HRCHY-CytoCommunity, a graph neural network framework for identifying multi-level tissue structures directly from cell-type annotated …
Read PDF<h4>Background</h4>Tumor cell heterogeneity is a fundamental driver of breast cancer aggressiveness, underlying recurrence, metastasis, and therapy resistance. Understanding the biological characteristics and functions of specific tumor cell clusters in the tumor microenvironment is crucial for …
Read PDFBACKGROUND: Sodium overload-induced cell death is a novel mode of cell death that differs from other modes and is a very promising new target for cancer therapy. In addition, sodium overload-induced cell death plays a …
Read PDFCancer cell dormancy is a clinically consequential yet computationally under-defined phenomenon characterised by reversible growth arrest and delayed disease recurrence. Although advances in single-cell and multi-omic profiling have improved detection of dormant and persister populations, …
Read PDFHepatocellular carcinoma (HCC) is characterized by substantial heterogeneity and immune tolerance, and its therapeutic efficacy is profoundly influenced by the immune microenvironment. Ferroptosis, an iron-dependent form of regulated cell death, is closely linked to tumor …
Read PDFRadiation-induced lung injury (RILI) represents a major dose-limiting complication of thoracic radiotherapy, profoundly affecting therapeutic outcomes and patient quality of life. Although RILI is clinically significant, its molecular underpinnings are not fully elucidated, hampering the …
Read PDF<h4>Background</h4>Sex and atherosclerotic plaque histology are intertwined, with fibrous plaques being more prevalent in women. Plaque erosion, a significant contributor to acute coronary syndromes, is linked to fibrous plaques and is more prevalent in women …
Read PDFCellular identity emerges from the dynamic coordination of context-aware gene programs that encode biological functions across molecular layers. To decode this complexity, we present SSpMosaic, a computational framework that establishes metaprograms (higher-order, cross-dataset aligned gene …
Read PDFBACKGROUND: The neuroactive ligand–receptor signaling pathway is increasingly recognized as a regulator of tumor–immune interactions, yet its contribution to lung adenocarcinoma (LUAD) progression and immune evasion remains poorly defined. METHODS: We integrated multi‑cohort transcriptomic datasets, …
Read PDF<h4>Background</h4>For over a century, the dominant hypothesis has maintained that meningiomas arise exclusively from arachnoid cap cells. However, emerging evidence from single-cell transcriptomics, spatial sequencing, developmental biology, and transgenic animal models suggests a significantly more …
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