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BACKGROUND: Non-small cell lung cancer (NSCLC) patients often develop resistance to platinum-based chemotherapy, especially cisplatin, leading to treatment failure. This study aimed to identify high-score epithelial cells in tumors within the cisplatin-resistant gene panel (CRGP) …
Read PDF<b>Background:</b> Tumor-associated macrophages (TAMs) are key components of the hepatocellular carcinoma (HCC) microenvironment, but their spatial heterogeneity remains incompletely characterized. We aimed to assess the biological and prognostic relevance of a <i>BAG3</i>-associated TAM program in …
Read PDFImaging-based spatial transcriptomic (ST) assays now profile targeted gene panels for hundreds of thousands of cells while preserving tissue context, yet most downstream analyses still need a compact, interpretable subset. We introduce CiCLoDS (Clustering in …
Read PDFProstate adenocarcinoma (PRAD) poses a significant challenge due to therapy resistance and an immunosuppressive tumor microenvironment (TME). Ferroptosis has emerged as a therapeutic vulnerability, yet its immunomodulatory role in PRAD remains elusive. Here, we employed …
Read PDFPlant immunity research is being reshaped by integrative multi-omics approaches that connect transcriptomic, proteomic, and interactomic data to build systems-level views of plant-pathogen interactions. This review outlines the scope and methodological landscape of these approaches, …
Read PDFGastric cancer (GC) shows marked heterogeneity driven by the tumor microenvironment, leading to therapeutic resistance and poor prognosis. Using spatial transcriptomics of invasive murine tumors and human GC samples, we identified a distinct stromal-immune-vascular core …
Read PDF<h4>Background</h4>Invasive plants pose a major threat to global biodiversity, yet the molecular and genomic mechanisms underlying their success remain poorly understood. Here, we investigate the invasion of the common reed Phragmites australis, a grass species …
Read PDF<i>N</i>-Nitrosodimethylamine (NDMA), a probable human carcinogen, induces toxic and mutagenic DNA <i>O</i> <sup>6</sup>-methylguanine (<i>O</i> <sup>6</sup>MeG) adducts that are repaired by <i>O</i> <sup>6</sup>-methylguanine-DNA methyltransferase (MGMT). To elucidate how early-life environmental mutagenic exposures promote latent liver tumorigenesis, …
Read PDFGlioblastoma multiforme (GBM) remains the most aggressive and therapeutically intractable primary brain tumor, with many patients experiencing rapid relapse despite maximal surgical resection followed by standard chemoradiation. This persistent failure reflects the convergence of profound …
Read PDFThe advent of spatial transcriptomics has opened new avenues for exploring spatial heterogeneity in gene expression across tissues. However, effectively quantifying the influence of specific cell populations on their niche remains a key challenge. Here, …
Read PDF<h4>Background</h4>Metabolic reprogramming is a pivotal driver of tumor microenvironment (TME) remodeling and colorectal cancer (CRC) progression. However, the spatial organization of glycolysis heterogeneity and the molecular drivers maintaining the malignant high-glycolytic state remain poorly understood.<h4>Methods</h4>Single-cell …
Read PDFBACKGROUND: Inflammatory bowel disease (IBD) represents a group of chronic and relapsing inflammatory disorders of the gastrointestinal tract, primarily encompassing Crohn’s disease (CD) and ulcerative colitis (UC). To elucidate immune heterogeneity and molecular mechanisms underlying …
Read PDF<h4>Purpose of review</h4>This review examines the limitations of conventional macroscopic approaches in detecting occult cervical lymph node metastasis (OCLNM). It also explores how multi-omics technologies and artificial intelligence (AI) driven cross-scale multimodal integration are reshaping …
Read PDFObesity is commonly associated with atrophy-like gray matter changes, such as lower gray matter volume or density, yet the affected regions reported vary widely across studies. It remains unclear whether these heterogeneous loci converge on …
Read PDFSystemic lupus erythematosus (SLE) is a clinically and biologically heterogeneous autoimmune disease in which patients with similar or disparate clinical phenotypes can exhibit distinct molecular drivers. This heterogeneity limits the utility of traditional, largely linear, …
Read PDFIn targeted spatial transcriptomics technologies, a key challenge is to select an informative gene panel that captures the complexity of cellular and spatial heterogeneity within tissues. Many existing methods use prior knowledge or heuristic selection …
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