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Single-cell mapping of peripheral immune dynamics in pregnant women after Moderna mRNA COVID-19 vaccination
Pregnant individuals are at increased risk of severe outcomes from COVID-19 infection, yet the immune responses elicited by vaccination during pregnancy remain poorly understood. In this study, longitudinal single-cell RNA sequencing (scRNA-seq) was performed on …
Read PDFSTC2-mediated calcium homeostasis dysregulation in the osteosarcoma microenvironment: Insights from single-cell sequencing and machine learning
<h4>Background</h4>Osteosarcoma (OS) is an aggressive bone malignancy with a poor prognosis. Dysregulated calcium homeostasis may contribute to OS progression.<h4>Methods</h4>Various machine learning algorithms were integrated into multiple model combinations to identify key prognostic genes. Single-cell expression …
Read PDFIntegrated Single-Cell Transcriptomics Identifies γδ T-Cell Heterogeneity and a Candidate HLA-E-NKG2A Regulatory Axis in Pancreatic Ductal Adenocarcinoma
<b>Background:</b> Pancreatic ductal adenocarcinoma (PDAC) has a profoundly immunosuppressive tumour microenvironment (TME) that limits anti-tumour immunity and contributes to resistance to immunotherapy. Although γδ T-cells can integrate innate and adaptive immune signals, their abundance, transcriptional …
Read PDFSingle-cell transcriptomic insights into lipoprotein transport in yolk sac membrane endodermal epithelial cells of chicken embryos
Efficient lipid mobilization from yolk is critical for avian embryonic development, yet the cellular mechanisms governing lipoprotein transport in yolk sac membrane endodermal epithelial cells remain poorly characterized. Single-cell RNA sequencing was performed on 9,037 …
Read PDFSingle-Cell Metabolic Imaging Reveals Glycogen-Driven Adaptations in Endothelial Cells
Endothelial dysfunction (ED) is a defining feature of diabetes mellitus (DM) and a key contributor to many metabolic and cardiovascular diseases. Endothelial cells (ECs) are known to be highly glycolytic and primarily rely on glucose …
Read PDFKYNU in macrophages contributes to the unique immune feature of LUAD via integrating single-cell and bulk RNA sequencing data: an exploratory analysis
<h4>Background</h4>Lung adenocarcinoma (LUAD) is a predominant subtype of lung cancer associated with an unfavorable prognosis. However, the roles of the tumor microenvironment (TME) and Kynureninase (KYNU) in LUAD remain largely unclear. This study aimed to …
Read PDFToward precision longevity: aging interventions in the single-cell atlas era
With growing global interest in extending not only lifespan but also healthspan, healthy aging has emerged as a central goal in biomedical research. This review provides an overview of current longevity interventions, including genetic manipulations, …
Read PDFDeep single-cell decoding of human pancreatic islets reveals T2D β-cell gene expression defects
Pancreatic islets maintain glucose homeostasis through coordinated action of endocrine and affiliate cell types and are central to type 2 diabetes (T2D) genetics and pathophysiology. Our understanding of robust human islet cell type-specific alterations in …
Read PDFA generic reference defined by consensus peaks for single-cell ATAC-seq data analysis
The rapid advancement of transposase-accessible chromatin using sequencing (ATAC-seq) technology, particularly with the emergence of single-cell ATAC-seq (scATAC-seq), accelerates the studies of gene regulation. However, the absence of a generic feature reference for ATAC-seq data …
Read PDFUnveiling gene perturbation effects through gene regulatory networks inference from single-cell transcriptomic data
Physiological and pathological processes are governed by networks of genes called gene regulatory networks (GRNs). By reconstructing GRNs, we can accurately model how cells behave in their natural state and predict how genetic changes will …
Read PDFSingle-Cell Landscape Change in Cervical Epithelial Cells and Microenvironment During the Transformation from CINIII to Cervical Squamous Cell Carcinoma
<b>Background:</b> The rising incidence of CINIII, particularly in younger patients, has highlighted limitations of current surgical treatments, which can affect fertility and carry recurrence risks. This underscores an urgent clinical need for non-invasive therapies. Our …
Read PDFSingle-Cell Analysis Highlights Pivotal Role of Eosinophil-Basophil Mast Cell Progenitor-Related Mechanism in Primary Immune Thrombocytopenia
Immune thrombocytopenia (ITP) is an autoimmune disease. Megakaryocyte dysfunction caused by autoimmune response can lead to thrombocytopenia, and the underlying mechanism is still unclear. Single-cell sequencing analysis revealed the heterogeneity of CD34 + HSPCs in …
Read PDFscDEBGCL: a deep embedding approach based on bipartite graph contrastive learning for single-cell RNA-seq data
<h4>Background</h4>Single-cell RNA sequencing (scRNA-seq) allows for the measurement of gene expression at the transcriptomic level with single-cell precision, thereby deepening our comprehension of cellular heterogeneity. However, the high dimensionality and sparsity of scRNA-seq data impede …
Read PDFSpatial single-cell multiomics reveals peripheral immune dysfunction in Parkinson's and inflammatory bowel disease
Parkinson's disease (PD) is the fastest-growing neurodegenerative disease in the world<sup>1</sup>. Gastrointestinal (GI) dysfunction can occur decades before motor impairments and in up to 80% of individuals living with PD<sup>2-4</sup>. We investigated peripheral relationships that …
Read PDFSingle-cell transcriptomics of chicken ovarian cancer identifying immune subsets with prognostic implications
Ovarian cancer (OC) is a lethal gynecological malignancy with a low 5-year survival rate. The lack of preclinical models accurately capturing OC's early pathogenesis contributes to this poor prognosis. The domestic laying hen uniquely develops …
Read PDFSingle-Cell Immune Atlases to Map Small Extracellular Vesicle Cargo in Tuberculosis-Diabetes Comorbidity: A Narrative Review and Conceptual Roadmap
Tuberculosis-diabetes mellitus (TB-DM) is increasingly recognized as a syndemic in which chronic metabolic dysregulation amplifies tuberculosis severity, delays treatment response, and increases relapse and mortality. However, conventional systemic correlates soluble cytokines and bulk whole-blood transcriptomic …
Read PDFSingle-cell multimodal analysis reveals the dynamic immunopathogenesis of HBV-ACLF progression
<h4>Background</h4>Acute-on-chronic liver failure (ACLF) is a life-threatening syndrome involving dysfunction of multiple immune cell types.<h4>Objective</h4>This study aimed to comprehensively depict the dynamic trajectory of immune responses throughout the disease course of HBV-related ACLF (HBV-ACLF).<h4>Design</h4>Single-cell RNA …
Read PDFEvaluating the practical aspects and performance of commercial single-cell RNA sequencing technologies
The rapid development of updated and new commercially available single-cell transcriptomics platforms provides users with a range of experimental options. Cost, sensitivity, throughput, flexibility, and ease of use all influence the selection of an optimal …
Read PDFSingle-Cell and Multiomic Analysis Reveals Neutrophil Heterogeneity and Prognostic Value in Cervical Lesions
Cervical cancer is a prevalent malignancy among women, yet the involvement of neutrophils in its tumor microenvironment remains insufficiently explored. This study utilized single-cell RNA sequencing (scRNA-seq) to delineate neutrophil subsets and elucidate their roles …
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