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Single-cell landscape of peripheral and tumor-infiltrating immune cells in HPV-negative HNSCC.
Head and neck squamous cell carcinoma (HNSCC) is the sixth most common cancer worldwide. HPV-negative HNSCC, arising in diverse upper airway mucosal niches, is particularly aggressive, with poor 5-y survival and a limited response to immune…
FULLTEXT: Spatial transcriptomics -
Integrating tumor and immune cell transcriptomics to predict immune checkpoint inhibitor primary resistance in metastatic melanoma.
The emergence of immune checkpoint inhibitors (ICIs) has transformed the treatment landscape of metastatic melanoma. However, despite its success, reliable biomarkers for predicting primary resistance are not available in clinical practice.…
FULLTEXT: Spatial transcriptomics -
Spatial transcriptomics unveils immune cellular ecosystems associated with patient survival in diffuse large B-cell lymphoma.
Diffuse large B-cell Lymphoma (DLBCL) is the most prevalent subtype of non-Hodgkin's lymphoma for which current therapeutic strategies remain insufficient, in part owing to heterogeneity in tumor biology and the immune microenvironment. The…
FULLTEXT: Spatial transcriptomics -
Leukemia-derived exosomes induce immunosuppression of dendritic cell function via TGFB2-MRPL58 axis.
[OBJECTIVES] To elucidate the mechanisms by which leukemia-derived exosomes induce immunosuppression in dendritic cells (DCs) and identify potential therapeutic targets. [METHODS] The optimal exosome dosage (20 µg/ml) for DC treatment was …
FULLTEXT: Spatial transcriptomics -
DA-LUNGNET: a multi-stage deep framework with adaptive attention for early detection of subcentimeter pulmonary nodules.
Early and reliable detection of subcentimeter pulmonary nodules remains a major bottleneck in low-dose CT-based lung cancer screening due to high miss rates, vascular-adhesion-induced false positives, and insufficient multi-scale feature fu…
FULLTEXT: Spatial transcriptomics -
Advancing the understanding of the immune escape in lung cancer immunotherapy: Global trends, collaborations, and future directions.
Immune escape mechanisms critically restrict the efficacy of immunotherapy in lung cancer (LC), with only 20%-30% of patients responding to checkpoint inhibitors. To systematically map global trends and identify emerging hotspots, this stud…
FULLTEXT: Spatial transcriptomics -
A data fusion deep learning approach for accurate organelle-based classification of cancer cells.
[PURPOSE] Microscopy-based cancer cell classification traditionally relies on cell-based morphological features, while subcellular organelle organization remains underutilized. Existing machine learning methods often require manual preproce…
FULLTEXT: Spatial transcriptomics -
A system-level metastable model of cancer evolution: integrating replication stress, cell cycle deregulation and chromosomal instability.
[INTRODUCTION] Cancer cell proliferation occurs within the context of persistent genomic instability. In this review, we propose the RS-CCD-CIN axis as a systems-level framework in which replication stress (RS), cell cycle deregulation (CCD…
FULLTEXT: Spatial transcriptomics -
Spatial confinement-enhanced CHA system based on tetrahedral DNA nanostructures for sensitive in situ mRNA analysis.
Sensitive and efficient detection of tumor-related mRNA is essential for the early diagnosis of cancer yet remains challenging due to low biomarker abundance and methodological limitations. Here, we developed a three-dimensional DNA nanomac…
FULLTEXT: Spatial transcriptomics -
Integrated network pharmacology, metabolomics, and transcriptomics of Lianpuyin Jiawei decoction in Helicobacter pylori induced chronic gastritis.
[ETHNOPHARMACOLOGICAL RELEVANCE] Helicobacter pylori (H. pylori) infection represents the most significant pathogenetic factor for chronic gastritis (CG) and is also the most critical controllable risk factor for the prevention of gastric c…
FULLTEXT: Spatial transcriptomics -
Targeting the NSUN5-circPPAP2A axis reverses immunosuppression and sensitizes renal cell carcinoma to anti-PD-1 therapy.
[BACKGROUND] The role of 5-methylcytosine (m5C) RNA modification in clear cell renal cell carcinoma (ccRCC) is recognized, yet its function and regulation on circular RNAs (circRNAs) remain uncharted. This study aims to identify key m5C reg…
FULLTEXT: Spatial transcriptomics -
Integration of deep learning and radiomic features from multiplex immunohistochemistry images for reproducible Multi-Outcome prediction in a Multi-Center study of colorectal cancer.
[OBJECTIVE] To develop and validate a robust, multimodal machine learning framework integrating radiomic and deep learning features from multiplex immunohistochemistry (mIHC) images for comprehensive outcome prediction in colorectal cancer …
FULLTEXT: Spatial transcriptomics -
Cross-species single-cell and spatial transcriptomic mapping reveals EFNA1-EPHA4-mediated stem-like epithelial-macrophage crosstalk driving colorectal cancer progression.
Colorectal cancer (CRC) typically follows the "normal-adenoma-carcinoma" (NAC) progression, with approximately 70-90% of cases driven by an adenomatous polyposis coli (APC) mutation-dependent pathway. The Apc-mutant (Min) mouse, valuable fo…
FULLTEXT: Spatial transcriptomics -
Integrating multi-omics and artificial intelligence for personalized breast cancer management: A guide to clinicians.
Breast cancer's (BC) diverse nature and global impact demand tailored clinical strategies. Conventional screening methods often fall short in early detection and individualized risk assessment. By merging multi-omics technologies such as ge…
FULLTEXT: Spatial transcriptomics -
Bie-Jia-Jian Pill: Inhibiting tumor glycolysis and promoting CD8 cell-mediated anti-tumor immunity by targeting HIF-1α-PI3K/AKT/mTOR and CCL20 in hepatocellular carcinoma.
[ETHNOPHARMACOLOGICAL RELEVANCE] The efficacy of immunotherapy for hepatocellular carcinoma (HCC) is often limited by an immunosuppressive tumor microenvironment (TME), largely driven by tumor metabolic reprogramming (the Warburg effect) th…
FULLTEXT: Spatial transcriptomics -
The Yin and Yang of tertiary lymphoid structures in primary liver cancer.
Tertiary lymphoid structures (TLSs) have emerged as key regulators of anti-tumor immunity and biomarkers for immunotherapy response in liver cancer, including hepatocellular carcinoma (HCC), intrahepatic cholangiocarcinoma (iCCA), and combi…
FULLTEXT: Spatial transcriptomics -
Fueling the fatal voyage: How metabolic plasticity empowers every step of cancer metastasis.
Metastasis is the primary cause of cancer mortality, a complex cascade driven by intertwined cellular adaptability and microenvironmental reprogramming. Although its mechanistic origins are multifactorial and context-dependent, metabolic pl…
FULLTEXT: Spatial transcriptomics -
Multi-layer molecular profiling defines an immune-active colorectal cancer subtype with therapeutic relevance.
Colorectal cancer (CRC) exhibits substantial heterogeneity in response to immunotherapy, highlighting the critical need for improved stratification strategies. Here, we established a robust multi-omics framework by integrating transcriptomi…
FULLTEXT: Spatial transcriptomics -
The CXCL12-CXCR4/CXCR7 axis as a therapeutic target in liver cancer: Enhancing immune evasion and the future of combination therapies.
Liver cancer remains one of the leading causes of cancer-related death worldwide, and its immunologically "cold" tumor microenvironment continues to undermine the efficacy of immunotherapy. Among the many stroma-derived factors, C-X-C motif…
FULLTEXT: Spatial transcriptomics -
Combining network pharmacology and transcriptomics to validate and explore Shenqiyichang decoction in treating colorectal cancer by NQO1 inhibition, ROS activation and Wnt/β-catenin signaling pathway.
TL;DRA novel mechanistic insight is provided of SQYC's potential as a promising candidate for the clinical treatment of CRC through NQO1 suppression, ROS activation, and Wnt/β-catenin pathway inhibition.
FULLTEXT: Spatial transcriptomics