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<b>Background:</b> Glycosylation and inflammation are pivotal in tumor progression, yet the specific glycosyltransferases bridging these processes remain poorly defined. This study investigated Exostosin-1 (EXT1), a key enzyme in heparan sulfate (HS) biosynthesis, as a mechanistic …
Read PDFColorectal cancer (CRC) presents considerable therapeutic challenges due to its diverse cellular composition and intricate microenvironment. Our study utilized single-cell RNA sequencing (scRNA-seq) on CRC tissues, examining 18,741 individual cells, which were grouped into six …
Read PDFSingle-cell RNA sequencing (scRNA-seq) has revolutionized understandings of cellular identities and functions due to the ability to study transcriptome-wide gene expression within individual cells. Multi-tissue scRNA-seq atlases have generated holistic understandings of body-wide cell dynamics …
Read PDFCurrent single-cell RNA sequencing (scRNA-seq) methods suffer from biases that restrict the detection of cellular transcripts to 10-40% of total RNAs. This hinders the identification of transcripts of interest. Additionally, information retrieved from most high-throughput …
Read PDF<h4>Background</h4>Hepatocellular carcinoma (HCC) remains a leading cause of cancer-related mortality worldwide, with neutrophils playing complex dual roles in tumor progression and immune regulation. The heterogeneous nature of the tumor immune microenvironment necessitates precise molecular characterization …
Read PDFRelapse and treatment resistance remain critical obstacles in the clinical management of angioimmunoblastic T-cell lymphoma (AITL), limiting the success of current therapeutic strategies. Therefore, a comprehensive characterization of the tumor microenvironment (TME) in AITL is …
Read PDFChronic neuroinflammation driven by activated microglia is a critical hallmark of Alzheimer's disease (AD) progression. Metabolic dysregulation, particularly iron metabolism, has been implicated in neurodegeneration, yet the role of iron-responsive element-binding protein 2 (IREB2) in …
Read PDFTooth development is a continuous, highly orchestrated process that serves as an ideal model for dissecting the cellular and molecular mechanisms of organogenesis. In recent years, advances in single-cell transcriptomics have provided unprecedented insights into …
Read PDFOsteoarthritis is a degenerative joint disease that disrupts the cellular homeostasis within cartilage tissues, promoting further disease progression that can lead to debilitating pain. Cartilage of the temporomandibular joint (TMJ) is unique among diarthrodial joints …
Read PDF<h4>Background</h4>Hepatocellular carcinoma (HCC) is one of the most prevalent malignant tumors of the liver, with increasing incidence and mortality rates globally. This study investigates the role of endothelial cells (ECs) in the progression of HCC, …
Read PDFOBJECTIVE: Single-cell RNA sequencing (scRNA-seq) is pivotal for deciphering cellular heterogeneity in biomedical research, from developmental biology to cancer studies. However, accurate cell type identification via clustering remains challenging. Current graph-based methods are limited by …
Read PDFIntratumoral heterogeneity complicates the interpretation of single-test biomarkers. Microsatellite instability (MSI) is one such biomarker, which is used to guide immune checkpoint inhibitor treatment by classifying samples as having high microsatellite instability (MSI-H) or as …
Read PDF<h4>Background</h4>Non-small cell lung cancer (NSCLC) remains a leading cause of cancer mortality due to frequent metastasis, despite therapeutic advances. This study aims to identify novel drivers of NSCLC metastasis to facilitate the development of prognostic …
Read PDFSenescent cells accumulate with age following stress-induced cell cycle arrest triggered by DNA damage, oncogene activation, and replicative exhaustion. While they contribute to tissue repair and tumor suppression, their persistent senescence-associated secretory phenotypes (SASPs) drive …
Read PDF<h4>Background</h4>Radiotherapy resistance limits colorectal cancer (CRC) treatment efficacy, with only 15%-20% of patients achieving a complete response. Validated biomarkers predicting treatment response and serving as therapeutic targets are critically needed.<h4>Methods</h4>We performed integrative multiomics analysis of …
Read PDFThe global emergence of multiple viral zoonoses underscores the substantial threats of viral infections to human health. Given the dynamic and complex mechanisms underlying viral pathogenesis, sophisticated approaches are requisite to advance viral research. Here, …
Read PDF<h4>Purpose</h4>To investigate the role of the CXCL signaling pathway in angiogenesis of endometrial cancer and evaluate its potential as a therapeutic target.<h4>Patients and methods</h4>Single-cell RNA sequencing <b>(scRNA-seq)</b> data from 18 endometrial cancer and normal control …
Read PDFData preprocessing is critical for single-cell omics analyses, but default pipelines often underperform on diverse datasets, especially from emerging platforms like spatial transcriptomics. We introduce Lense, a language-model-guided method that automatically selects optimal preprocessing by …
Read PDFSurvival analysis is fundamental to cancer research. Advances in technology have enabled an increasing number of cohort-level cancer studies to incorporate single-cell sequencing alongside clinical survival data. However, no effective strategy currently exists for directly …
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