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imaging mass cytometry imc data  (fluidigm)


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    Structured Review

    fluidigm imaging mass cytometry imc data
    Imaging Mass Cytometry Imc Data, supplied by fluidigm, used in various techniques. Bioz Stars score: 93/100, based on 1523 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/imc+data/Hyperion+Imaging+Mass+Cytometry+System/pmc12069457-68-0-12
    Average 93 stars, based on 1523 article reviews
    imaging mass cytometry imc data - by Bioz Stars, 2026-10
    93/100 stars

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    Related Articles

    Imaging:

    Article Title: Aptamer Probes Labeled with Lanthanide‐Doped Carbon Nanodots Permit Dual‐Modal Fluorescence and Mass Cytometric Imaging
    Article Snippet: .. The IMC data were acquired from the Hyperion imaging system (Fluidigm 108001; laser type, Nd:YAG, 213 nm; ablation spot size, 1 μm 2 ; 135 channels, 75–209 amu) and analyzed by MCD Viewer (Fluidigm), CellProfiler (Carpenter Lab, Broad Institute, MIT), and histoCAT (Bodenmiller lab, Institute of Molecular Life Sciences, University of Zurich) software. .. The TEM size distributions of blue‐, green‐, and red‐Cdots( 165 Ho) dual‐functional tags were analyzed by ImageJ software.

    Article Title: Zr-NMOF tagged with heterobifunctionalized aptamers for highly sensitive, multiplexed and rapid imaging mass cytometry.
    Article Snippet: Imaging mass cytometry (IMC) permits high-dimensional single-cell spatial proteomics by harnessing mass tags to replace conventional fluorescence tags.. However, the current IMC technique commonly adopts metal-chelated polymer (MCP) tags, which are limited in sensitivity, multiplicity and data acquisition speed.. Here, we demonstrate nanometal–organic framework (NMOF) tags, which could concurrently augment IMC’s sensitivity, multiplicity, and acquisition speed.

    Article Title: High-multiplex single-cell imaging analysis reveals tumor immune contexture associated with clinical outcomes after CAR T cell therapy.
    Article Snippet: 1Department of Hematology, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan 430030, China; 2Immunotherapy Research Center for Hematologic Diseases of Hubei Province, Wuhan 430030, China; 3Department of Hematology, Renmin Hospital of Wuhan University, Wuhan 430060, China; 4Department of Hematology, The First Affiliated Hospital, Harbin Medical University, Harbin 150010, China; 5Department of Hematology, Harbin Medical University Cancer Hospital, Harbin Medical University, Harbin 150081, China; 6Department of Pathology, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan 430030, China; 7Biomedical Research Core Facilities, Westlake University, Hangzhou 310024, China; 8Key Laboratory of Organ Transplantation, Ministry of Education, Wuhan 430030, China; 9Research Institute of Huazhong University of Science and Technology in Shenzhen, Shenzhen 518000,

    Article Title: Extracellular matrix phenotyping by imaging mass cytometry defines distinct cellular matrix environments associated with allergic airway inflammation
    Article Snippet: .. IMC data was acquired on the Hyperion® Imaging System (Standard BioTools). ..

    Article Title: FLT3L governs the development of partially overlapping hematopoietic lineages in humans and mice.
    Article Snippet: Finally, IMC data corresponding to pre-established regions of interest (ROIs) were acquired as raw .mcd files with the Hyperion imaging system (Fluidigm). .. Finally, IMC data corresponding to pre-established regions of interest (ROIs) were acquired as raw .mcd files with the Hyperion imaging system (Fluidigm). .. Segmentationmaskswere generatedwith the deep learningmodel Deepcell using the iridium channel as the nuclear signal and vimentin, pancytokeratin, CD45, E-cadherin and HLA-DR as cytoplasmic signals.

    Article Title: High-content multimodal analysis supports the IL-7/IL-7 receptor axis as a relevant therapeutic target in primary Sjögren's syndrome.
    Article Snippet: Objective: While the involvement of IL-7/IL-7R axis in pSS has been described in relation to T cells, little is known about the contribution of this pathway in relationship with other immune cells, and its implication in autoimmunity.. Using high-content multiomics data, we aimed at characterizing IL-7R expressing cells and the involvement of IL-7/IL-7R pathway in pSS pathophysiology.. Methods: An IL-7 signature established using RNA-sequencing of human PBMCs incubated with IL-7 was applied to 304 pSS patients, and on RNA-Seq datasets from tissue biopsies.

    Article Title: Proteomic interrogation of the meninges reveals the molecular identities of structural components and regional distinctions along the CNS axis.
    Article Snippet: Following antibody incubation, slides were washed with PBS and stained with Cell-IDTM Intercalator-Ir (Standard BioTools Inc.) and OsO4 (Sigma-Aldrich) in PBS for 2—3 h to label DNA and lipids, respectively, then washed with distilled, deionized water twice for 5 min before air-drying. .. IMC data was obtained using the HyperionTM imaging system in tandem with a HeliosTM Mass Cytometer (Standard BioTools Inc.). ..

    Software:

    Article Title: Aptamer Probes Labeled with Lanthanide‐Doped Carbon Nanodots Permit Dual‐Modal Fluorescence and Mass Cytometric Imaging
    Article Snippet: .. The IMC data were acquired from the Hyperion imaging system (Fluidigm 108001; laser type, Nd:YAG, 213 nm; ablation spot size, 1 μm 2 ; 135 channels, 75–209 amu) and analyzed by MCD Viewer (Fluidigm), CellProfiler (Carpenter Lab, Broad Institute, MIT), and histoCAT (Bodenmiller lab, Institute of Molecular Life Sciences, University of Zurich) software. .. The TEM size distributions of blue‐, green‐, and red‐Cdots( 165 Ho) dual‐functional tags were analyzed by ImageJ software.

    Article Title: Zr-NMOF tagged with heterobifunctionalized aptamers for highly sensitive, multiplexed and rapid imaging mass cytometry.
    Article Snippet: Imaging mass cytometry (IMC) permits high-dimensional single-cell spatial proteomics by harnessing mass tags to replace conventional fluorescence tags.. However, the current IMC technique commonly adopts metal-chelated polymer (MCP) tags, which are limited in sensitivity, multiplicity and data acquisition speed.. Here, we demonstrate nanometal–organic framework (NMOF) tags, which could concurrently augment IMC’s sensitivity, multiplicity, and acquisition speed.

    Marker:

    Article Title: High-multiplex single-cell imaging analysis reveals tumor immune contexture associated with clinical outcomes after CAR T cell therapy.
    Article Snippet: 1Department of Hematology, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan 430030, China; 2Immunotherapy Research Center for Hematologic Diseases of Hubei Province, Wuhan 430030, China; 3Department of Hematology, Renmin Hospital of Wuhan University, Wuhan 430060, China; 4Department of Hematology, The First Affiliated Hospital, Harbin Medical University, Harbin 150010, China; 5Department of Hematology, Harbin Medical University Cancer Hospital, Harbin Medical University, Harbin 150081, China; 6Department of Pathology, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan 430030, China; 7Biomedical Research Core Facilities, Westlake University, Hangzhou 310024, China; 8Key Laboratory of Organ Transplantation, Ministry of Education, Wuhan 430030, China; 9Research Institute of Huazhong University of Science and Technology in Shenzhen, Shenzhen 518000,

    Expressing:

    Article Title: High-multiplex single-cell imaging analysis reveals tumor immune contexture associated with clinical outcomes after CAR T cell therapy.
    Article Snippet: 1Department of Hematology, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan 430030, China; 2Immunotherapy Research Center for Hematologic Diseases of Hubei Province, Wuhan 430030, China; 3Department of Hematology, Renmin Hospital of Wuhan University, Wuhan 430060, China; 4Department of Hematology, The First Affiliated Hospital, Harbin Medical University, Harbin 150010, China; 5Department of Hematology, Harbin Medical University Cancer Hospital, Harbin Medical University, Harbin 150081, China; 6Department of Pathology, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan 430030, China; 7Biomedical Research Core Facilities, Westlake University, Hangzhou 310024, China; 8Key Laboratory of Organ Transplantation, Ministry of Education, Wuhan 430030, China; 9Research Institute of Huazhong University of Science and Technology in Shenzhen, Shenzhen 518000,

    Tissue:

    Article Title: Dark Microglia Are Abundant in Normal Postnatal Development, where they Remodel Synapses via Phagocytosis and Trogocytosis, and Are Dependent on TREM2
    Article Snippet: Flash-frozen, 6μm mouse sections underwent IMC staining using an adapted protocol from manufacturer (Standard BioTools). .. IMC data was acquired on a CYTOF-Helios instrument coupled to a Hyperion Tissue Imager (Fluidigm). ..

    Cytometry:

    Article Title: High-content multimodal analysis supports the IL-7/IL-7 receptor axis as a relevant therapeutic target in primary Sjögren's syndrome.
    Article Snippet: Objective: While the involvement of IL-7/IL-7R axis in pSS has been described in relation to T cells, little is known about the contribution of this pathway in relationship with other immune cells, and its implication in autoimmunity.. Using high-content multiomics data, we aimed at characterizing IL-7R expressing cells and the involvement of IL-7/IL-7R pathway in pSS pathophysiology.. Methods: An IL-7 signature established using RNA-sequencing of human PBMCs incubated with IL-7 was applied to 304 pSS patients, and on RNA-Seq datasets from tissue biopsies.

    Article Title: Proteomic interrogation of the meninges reveals the molecular identities of structural components and regional distinctions along the CNS axis.
    Article Snippet: Following antibody incubation, slides were washed with PBS and stained with Cell-IDTM Intercalator-Ir (Standard BioTools Inc.) and OsO4 (Sigma-Aldrich) in PBS for 2—3 h to label DNA and lipids, respectively, then washed with distilled, deionized water twice for 5 min before air-drying. .. IMC data was obtained using the HyperionTM imaging system in tandem with a HeliosTM Mass Cytometer (Standard BioTools Inc.). ..



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    ( A ) The imaging mass cytometry <t>(IMC)</t> <t>data</t> collection and analysis workflow outlines the steps involved in gaining comprehensive insights into the spatial distribution of immune cells and relevant cell types within undecidualized (UnD) and decidualized (DD) EM-like lesions of WT, CNR1 k/o, and CNR2 k/o mice. ( B, C ) Representative images showing the single-cell segmentation performed following the acquisition of two regions of interest (ROI) per section (three biological samples per genotype) and segmentation quality of the data after segmentation analysis was conducted, respectively. ( D ) Non-linear dimensionality reduction after batch effect correction showed distinct expression patterns of immune cells and cell state markers between UnD and DD lesions. DD lesions from the CNR1 k/o and CNR2 k/o mice showed expression pattern that was significantly different from the DD lesions of WT mice, as well as compared to UnD lesions among different genotypes. ( E ) Uniform manifold approximation and projection (UMAP) dimensionality reduction highlighted key cell types and differences in composition between UnD and DD lesions. DD lesions exhibited increased stroma and fibroblasts, decreased epithelial cells, and heightened macrophage infiltration compared to UnD lesions.
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    Image Search Results


    ( A ) The imaging mass cytometry (IMC) data collection and analysis workflow outlines the steps involved in gaining comprehensive insights into the spatial distribution of immune cells and relevant cell types within undecidualized (UnD) and decidualized (DD) EM-like lesions of WT, CNR1 k/o, and CNR2 k/o mice. ( B, C ) Representative images showing the single-cell segmentation performed following the acquisition of two regions of interest (ROI) per section (three biological samples per genotype) and segmentation quality of the data after segmentation analysis was conducted, respectively. ( D ) Non-linear dimensionality reduction after batch effect correction showed distinct expression patterns of immune cells and cell state markers between UnD and DD lesions. DD lesions from the CNR1 k/o and CNR2 k/o mice showed expression pattern that was significantly different from the DD lesions of WT mice, as well as compared to UnD lesions among different genotypes. ( E ) Uniform manifold approximation and projection (UMAP) dimensionality reduction highlighted key cell types and differences in composition between UnD and DD lesions. DD lesions exhibited increased stroma and fibroblasts, decreased epithelial cells, and heightened macrophage infiltration compared to UnD lesions.

    Journal: eLife

    Article Title: Endocannabinoids and their receptors modulate endometriosis pathogenesis and immune response

    doi: 10.7554/eLife.96523

    Figure Lengend Snippet: ( A ) The imaging mass cytometry (IMC) data collection and analysis workflow outlines the steps involved in gaining comprehensive insights into the spatial distribution of immune cells and relevant cell types within undecidualized (UnD) and decidualized (DD) EM-like lesions of WT, CNR1 k/o, and CNR2 k/o mice. ( B, C ) Representative images showing the single-cell segmentation performed following the acquisition of two regions of interest (ROI) per section (three biological samples per genotype) and segmentation quality of the data after segmentation analysis was conducted, respectively. ( D ) Non-linear dimensionality reduction after batch effect correction showed distinct expression patterns of immune cells and cell state markers between UnD and DD lesions. DD lesions from the CNR1 k/o and CNR2 k/o mice showed expression pattern that was significantly different from the DD lesions of WT mice, as well as compared to UnD lesions among different genotypes. ( E ) Uniform manifold approximation and projection (UMAP) dimensionality reduction highlighted key cell types and differences in composition between UnD and DD lesions. DD lesions exhibited increased stroma and fibroblasts, decreased epithelial cells, and heightened macrophage infiltration compared to UnD lesions.

    Article Snippet: Bulk mRNA sequencing data is provided in the supplementary files (Supplementary Data 4) and IMC data generated in this study has been deposited in Mendeley Data ( https://doi.org/10.17632/2ptns5yhzh.2 ).

    Techniques: Imaging, Mass Cytometry, Expressing