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The molecular basis of spermatogenesis, which is a tightly regulated spatiotemporal process in testicular seminiferous tubules where germ cell differentiation and somatic-germ cell interactions drive sperm production, remains incompletely understood. Histological staining techniques lack molecular …
Read PDFRecent advances in single-cell transcriptomics and CRISPR-based genome editing have enabled large-scale perturbation experiments with genome-wide expression readouts. Single-cell CRISPR screens offer the opportunity to move beyond correlation and estimate causal effects of genetic perturbations …
Read PDFThe tumor microenvironment (TME) is crucial for tumor formation and progression, but its specific impact on NF2-related tumors has not been well described. The aim of this study was to analyze the differences in the …
Read PDFSpatial omics technologies enable high-resolution mapping of transcriptomic, proteomic, and metabolic profiles within intact tissues, revealing how immune, stromal, and parenchymal cells interact in situ during inflammation. Chronic inflammation in skeletal muscle and the central …
Read PDFChronic liver disease (CLD) represents a major global public health challenge, necessitating a systematic understanding of its complex immunopathological mechanisms. This review comprehensively summarizes the groundbreaking applications of cutting-edge technologies-including single-cell sequencing, spatial transcriptomics, and …
Read PDFGenome-scale gene expression analysis has become a standard approach for discovering biomarkers and understanding molecular mechanisms. Recent advances in omics technologies now enable investigations beyond conventional case-control comparison and standard gene-centric differential expression (DE) analyses. …
Read PDFDiabetic nephropathy (DN) pathogenesis remains elusive due to the lack of comprehensive spatial molecular characterization related to tissue pathological signatures. Here, we construct the spatial single-cell atlas of human DN kidneys using clinical formalin-fixed paraffin-embedded …
Read PDFColon cancer is one of the most prevalent malignant tumors. Accurate evaluation of patient prognosis and optimization of treatment strategies continue to be major research focuses in colon cancer. Based on The Cancer Genome Atlas …
Read PDFSpatial transcriptomics enables in situ mapping of gene expression, offering insights into tissue organization and cell-cell interactions. However, its utility is limited by data sparsity and technical noise for decoding complex tissue microenvironments. Here, we …
Read PDFNeoadjuvant therapy (NAT) is increasingly used for pancreatic ductal adenocarcinoma (PDAC); yet most patients only achieve partial response. Pathological treatment response grading focuses on assessing residual tumor burden, often overlooking changes in tumor microenvironment (TME). …
Read PDFSpatial transcriptomics enables detailed mapping of gene expression within tissues, revealing spatial organization of cellular and molecular processes. However, generating such data is costly and technically challenging, and analysis requires advanced bioinformatics skills. Although public …
Read PDFTumor development and progression are affected not only by cancer cell-intrinsic factors comprising complex genetic variations, but also by -extrinsic factors such as cell-cell communication (CCC)-mediated immunosuppression. However, whether and how these two types of …
Read PDF<h4>Introduction</h4>Ulcerative colitis (UC) is driven by mucosal inflammation and epithelial injury. Single cell RNA sequencing (scRNA-seq) enables high resolution profiling of immune, stromal and epithelial compartments in UC, whilst spatial transcriptomic (ST) and proteomic (SP) …
Read PDFStroke survivors face an elevated risk of developing Alzheimer's disease (AD), yet the biological mechanisms linking these conditions remain poorly defined. Here, we show that a stroke-induced gut microbiome is a key driver of AD-related …
Read PDFNeurodegenerative diseases are characterized by protein misfolding and the selective vulnerability of specific neuronal subtypes. This selective vulnerability presents a paradox; most neurodegenerative disease genes are expressed broadly throughout the brain, and some ubiquitously, but …
Read PDFThe immune system operates within organized tissue landscapes, where spatial relationships between cells shape the nature and outcome of immune responses. Over the past decade, protein imaging-based spatial technologies have transformed how immune responses are …
Read PDFGastric cancer (GC) is characterized by a complex tumor microenvironment (TME) with substantial cellular heterogeneity. Tumor-associated macrophages (TAMs) represent the most abundant immune cell population in the TME and exhibit remarkable functional plasticity. This study …
Read PDFThe liver serves as a central metabolic hub, essential for homeostasis, detoxification, and immunity. Recent advances in single-cell and single-nucleus RNA sequencing (scRNA-seq and snRNA-seq) have fundamentally transformed our capacity to resolve the cellular architecture …
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