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Intratumor heterogeneity (ITH) is a fundamental driver of therapeutic failure and disease progression. However, the complexity of the tumor ecosystem is a critical yet underexplored aspect, making its precise quantification essential for fully deciphering ITH …
Read PDFBACKGROUND: Newcastle disease virus (NDV), a significant avian pathogen and promising oncolytic agent, relies on host metabolic pathways for replication. However, the metabolic alterations induced by NDV, particularly the connections at the gene and protein …
Read PDFPermanent fish cell lines offer promising alternatives to traditional animal models for environmental risk assessment of chemicals. However, to facilitate broader uptake into toxicity testing practice, a better understanding of functional capacities and expression of …
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Read PDFRheumatoid arthritis (RA) is a chronic autoimmune inflammatory disorder marked by joint swelling, pain, and progressive tissue destruction. Increasing evidence suggests that dysregulated RNA expression critically drives RA progression by perturbing immune, inflammatory, and stromal …
Read PDFBACKGROUND: Tumor budding (TB) is a histopathological feature associated with poor prognosis across multiple cancer types, including head and neck squamous cell carcinoma (HNSCC). Tumor buds represent the earliest traceable local invasion and are considered …
Read PDF[This corrects the article DOI: 10.1093/narmme/ugag016.].
Read PDF<h4>Background</h4>Perineural invasion (PNI) is a hallmark of malignancy in solid tumors, including oral squamous cell carcinoma (OSCC), and is closely associated with poor prognosis. Emerging evidence suggests a critical association between PNI and the tumor …
Read PDF<h4>Background</h4>Long-term survival of lung transplant recipients remains limited by chronic lung allograft dysfunction (CLAD). CLAD is only diagnosed following a persistent and substantial decline in lung function, after which irreversible damage to the lungs has …
Read PDFThe gene expression changes associated with memory acquisition, consolidation and reconsolidation-all active epochs in memory formation-have been well characterized in the rodent hippocampus. Less is known, however, of the changes in gene expression during the …
Read PDF<h4>Motivation</h4>Most imaging-based spatial transcriptomics methods measure individual genes, which limits scalability and typically requires integration with scRNA-seq to recover full cellular states. Recent approaches such as CISI, FISHnCHIPs, and ATLAS address this limitation by measuring …
Read PDFSpatial transcriptomics allows for the investigation of complex cellular ecosystems directly in their native tissues and enables the dissection of immune niches as spatially organized and functionally diverse microenvironments across homeostatic, inflammatory, and malignant settings. …
Read PDFThe ability to resolve rare and transient cellular states is critical for understanding metastasis, immune evasion, and therapy resistance in cancer, yet these dynamic processes often escape detection by conventional sequencing and imaging approaches. Recent …
Read PDF<h4>Study question</h4>Are key signalling pathways WNT, TGFβ/BMP, NOTCH, and HH involved in follicular atresia in the human adult ovary?<h4>Summary answer</h4>In this study, we used spatial transcriptomics to investigate the progression of follicular atresia, focusing on …
Read PDF<h4>Background</h4>Dry age-related macular degeneration (AMD) is characterized by progressive degeneration of the retinal pigment epithelium-choroid interface, accompanied by immune dysregulation. However, the cellular interactions and regulatory mechanisms driving macrophage activation in this process remain incompletely …
Read PDF<h4>Background</h4>Nasopharyngeal carcinoma (NPC) is associated with aberrant cellular metabolism and interactions between tumor and stromal cells. This study aims to elucidate the role of glycerophospholipid metabolism in NPC, particularly focusing on the interplay between malignant …
Read PDFIntracranial aneurysm (IA) prevalence in the general population can be as high as 3%. Most IAs are asymptomatic and diagnosed incidentally. However, IAs can cause subarachnoid hemorrhage (SAH), which is responsible for high mortality and …
Read PDFUnderstanding local immune responses and the structural integrity of the genital mucosal barrier is essential for advancing knowledge of both susceptibility to sexual HIV transmission and the pathogenesis of chronic HIV infection. This review highlights …
Read PDFIdentifying spatial domains is crucial in spatial transcriptomics, yet effectively integrating gene expression, spatial location, and histology remains challenging. We present STESH, a Spatial Transcriptomics clustering method that combines Expression, Spatial information and Histology. STESH …
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