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Tumors are complex systems comprising diverse cell types that form the tumor spatial microenvironment (TSME). We present a pan-cancer spatial transcriptomic analysis of 373 samples across 12 cancer types and identify 56 local cellular programs …
Read PDFWe present a spatial transcriptomic map of the mouse urinary bladder at near single-cell resolution using Visium HD technology with 8 × 8 μm bins. After quality filtering, we analyzed 66,471 bins and 9,364 genes. …
Read PDFSpatial transcriptomics (ST) and spatial proteomics (SP) have revolutionised our ability to map RNA and protein distributions within intact tissues, shedding new light on the dynamic interactions that drive physiological processes in healthy and diseased …
Read PDF<h4>Background/purpose</h4>Multi-omics integration linking genomic, transcriptomic, epigenomic, proteomic, metabolomic, single-cell, and spatial data has transformed the interpretation of human genetic variation by capturing molecular processes that extend beyond DNA sequence alone. Although these approaches substantially improve …
Read PDF<h4>Objectives</h4>To evaluate the contribution of OMICS technologies to the understanding of peri-implantitis pathogenesis from a host immune perspective.<h4>Materials and methods</h4>A narrative review was conducted based on electronic searches of PubMed, MEDLINE, and Google Scholar up …
Read PDF<h4>Background</h4>Brain metastases (BrM) remain a major cause of mortality in breast cancer (BC), yet the spatial organization and molecular circuitry of the metastatic immune microenvironment are poorly defined.<h4>Methods</h4>To address this gap, we integrated high-plex imaging …
Read PDF<b>Background</b>: Spatially resolved transcriptomics (SRT) enables simultaneous measurement of gene expression and spatial location, but the existing domain detection methods are limited by over-reliance on spot-to-spot proximity, rigid pre-alignment requirements for multi-slice datasets, and inadequate …
Read PDFDeconvolution algorithms estimate cell-type abundances from tissue-level data, enabling systematic cellular analysis of large cohorts. However, most deconvolution algorithms are specifically designed for single-omics data, thereby limiting their generalizability and scalability for various omics data …
Read PDF<h4>Objective</h4>This study aimed to identify potential diagnostic biomarkers and candidate therapeutic targets through multi-omics integration of peripheral blood transcriptomics and metabolomics in children with asthma. We specifically investigated the association between bisphosphoglycerate mutase (BPGM) downregulation …
Read PDF<h4>Background</h4>Cell-cell communication via ligand-receptor signaling is a fundamental mechanism shaping multicellular organization and functional heterogeneity within tissue microenvironments. Recent advances in spatial transcriptomics (ST) have enabled unprecedented opportunities to systematically infer such interactions under the …
Read PDFOver the past century, studying the human brain has been one of the most complex and enduring biological challenges. Initial approaches, ranging from gross neural anatomy to cellular subtype organization, have significantly advanced our understanding …
Read PDF<h4>Background</h4>Severe asthma (SA) is characterized by corticosteroid insensitivity, persistent airway inflammation, and excessive oxidative stress, underscoring an urgent unmet therapeutic need. Meroterpenoids derived from Rhododendron capitatum Maxim have demonstrated potent anti-inflammatory properties; however, their therapeutic …
Read PDFThe liver is a primary target for recombinant adeno-associated viral (rAAV) vectors, yet the influence of serotype, sex, and liver zonation on transduction and transcriptomic changes remains incompletely understood. This proof-of-concept study employs spatial transcriptomics …
Read PDFThe evolutionary expansion of the primate prefrontal cortex (PFC) presents a profound biological enigma: how does this region achieve a highly ordered, modular architecture in the absence of direct dense sensory templates that govern primary …
Read PDFBACKGROUND: Tumor microenvironment (TME) plays a crucial role in cancer progression, metastasis, and treatment response. Recent advances in single-cell RNA sequencing (scRNA-seq) and spatial transcriptomics (ST) have provided valuable insights into the cellular diversity and …
Read PDFSidedness influences colorectal cancer (CRC) prognosis and treatment response, yet the mechanism dictating differential EGFR inhibitor (EGFRI) sensitivity is unclear. This study investigated the tumor microenvironment (TME) in relation to EGFRI eligibility-clinically defined by factors …
Read PDFEstrogen receptor-positive breast cancer progression involves extensive cellular remodeling, yet the contribution of RNA-binding proteins to this process remains incompletely defined. Here, we constructed a single-cell transcriptomic atlas of 198,286 cells from 39 samples spanning …
Read PDFEndometrial receptivity plays a crucial role in the process of embryo implantation and is a key factor affecting the success rate of assisted reproductive technology. Traditional ultrasound assessment of endometrial receptivity has poor accuracy. The …
Read PDFSeeds provide 70% of the global food supply, making them crucial for food security. Understanding the molecular mechanisms governing seed development, dormancy, and germination has become increasingly urgent as climate change impacts crop productivity. Over …
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