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Spatial transcriptomics is transforming our multidimensional understanding of cellular spatial organization and its functional mechanisms in processes such as development and disease by systematically resolving the spatial heterogeneity of gene expression within tissues. To delve …
Read PDF[This corrects the article DOI: 10.3389/fcell.2025.1633254.].
Read PDFProstate cancer is one of the most prevalent malignancies among men and remains a major clinical challenge due to the complex tumor microenvironment. Understanding gene expression dynamics at both cellular and spatial levels is essential …
Read PDFThe Coronavirus Disease 2019 (COVID-19) pandemic has highlighted the significance of reliable molecular biomarkers in clinical use. Despite the popularity of traditional statistical approaches, the high dimensionality of transcriptomic data presents challenges for these conventional …
Read PDF<h4>Motivation</h4>Single-cell spatial transcriptomics provides gene expression measurements of individual cells while preserving their spatial positions within tissue. Cell-cell communication (CCC) can be inferred by comparing the predictions of held-out gene expression levels by a pair …
Read PDFWe read the paper published in <i>World Journal of Gastroenterology</i> by Yang <i>et al</i> on how <i>Bifidobacterium</i> species alleviate colitis by modulating deoxycholic acid (DCA) levels and macrophage polarization, which provides important insights into the …
Read PDFThe tumor microenvironment [TME] is a dynamic ecosystem where spatial organization and metabolic reprogramming play a crucial role in immune response, tumor progression, and therapeutic response. Recent breakthroughs in spatial transcriptomics, metabolomics, and multiplexed imaging …
Read PDFHigh-grade gliomas (HGGs), particularly glioblastoma (GBM), remain highly lethal despite extensive molecular profiling and attempts at therapeutic innovation. Treatment failure is driven in part by spatially organized heterogeneity, including hypercellular cores, infiltrative margins, perivascular niches, …
Read PDF<h4>Background</h4>Psoriasis is an immune-mediated chronic inflammatory skin disease. Existing therapies have limitations, necessitating the development of new treatment approaches. Compound Baixianpi Formula (FFBXP) is a clinically effective topical Chinese herbal formula, but its material basis …
Read PDFGastric cancer (GC) is plagued by profound intratumoral heterogeneity and a complex tumor microenvironment (TME), which are the core obstacles to precise diagnosis and treatment. Conventional bulk multi-omics technologies average molecular signals across tissues, thus …
Read PDF<b>Background:</b> Glioblastoma (GBM) is the most aggressive primary brain tumor with extremely poor prognosis. Conventional diagnostic and prognostic approaches remain inadequate, highlighting the need for integrative strategies to improve patient outcomes. <b>Methods:</b> We analyzed ligand-receptor …
Read PDFCo-expression profiles and protoplast transient overexpression assays are beginning to unravel the complex regulatory network governing sorghum grain quality, revealing key transcription factors (TFs) that control starch and protein biosynthesis, and digestibility (Séne et al., …
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Read PDFThe liver is a highly multifunctional organ that can perform many metabolic and immunological functions due to a highly complex spatially organised microarchitecture that is disturbed in many liver diseases. Recent methodological advances in spatial …
Read PDFClassical Hodgkin lymphoma (cHL) is a paradigmatic example of a malignancy in which the tumor microenvironment (TME) plays a dominant role in disease biology. Malignant Hodgkin and Reed-Sternberg (HRS) cells typically constitute only a small …
Read PDFThe analysis of spatial transcriptomic data is hindered by high noise levels and missing gene measurements, challenges that are further compounded by the higher cost of spatial data compared to traditional single-cell data. To overcome …
Read PDF[This corrects the article DOI: 10.3389/fonc.2023.1112576.].
Read PDFBACKGROUND: Spatial transcriptomics (ST) is a rapidly transforming cancer research by enabling spatially resolved gene expression profiling within intact tissues. However, the growth, structure, and thematic evolution of research on ST research in oncology have …
Read PDFSpatially resolved transcriptomics (SRT) allows for the comprehensive profiling of gene expression while preserving spatial context, advancing the study of tissue architecture. However, existing computational approaches still face key limitations, particularly the insufficient exploitation of …
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