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quantification workflow  (Oxford Instruments)


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    Structured Review

    Oxford Instruments quantification workflow
    Schematic overview of the <t>workflow</t> for 2D and 3D analysis of hiPSC-derived neurospheres. (A) Generation of neurospheres from hiPSC, followed by fixation and preparation for either 2D cryosectioning or 3D tissue clearing. (B) Cleared neurospheres are embedded in agarose for light-sheet fluorescence microscopy, producing a Z-stack of ~ 300–500 optical sections at 3 μm intervals, depending <t>on</t> <t>spheroid</t> size and maturation. (C) Quantification workflow in Imaris using the spot detection function to enumerate positive cells across the entire spheroid, providing precise volumetric data rather than estimates from a single section. Illustrations were created with BioRender.
    Quantification Workflow, supplied by Oxford Instruments, used in various techniques. Bioz Stars score: 99/100, based on 43416 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/quantification+workflow/pmc13106745-39-64-67?v=Oxford+Instruments
    Average 99 stars, based on 43416 article reviews
    quantification workflow - by Bioz Stars, 2026-07
    99/100 stars

    Images

    1) Product Images from "Contribution of tissue clearing and 3D image analysis to in vitro modeling of human cortical development"

    Article Title: Contribution of tissue clearing and 3D image analysis to in vitro modeling of human cortical development

    Journal: Scientific Reports

    doi: 10.1038/s41598-026-41741-7

    Schematic overview of the workflow for 2D and 3D analysis of hiPSC-derived neurospheres. (A) Generation of neurospheres from hiPSC, followed by fixation and preparation for either 2D cryosectioning or 3D tissue clearing. (B) Cleared neurospheres are embedded in agarose for light-sheet fluorescence microscopy, producing a Z-stack of ~ 300–500 optical sections at 3 μm intervals, depending on spheroid size and maturation. (C) Quantification workflow in Imaris using the spot detection function to enumerate positive cells across the entire spheroid, providing precise volumetric data rather than estimates from a single section. Illustrations were created with BioRender.
    Figure Legend Snippet: Schematic overview of the workflow for 2D and 3D analysis of hiPSC-derived neurospheres. (A) Generation of neurospheres from hiPSC, followed by fixation and preparation for either 2D cryosectioning or 3D tissue clearing. (B) Cleared neurospheres are embedded in agarose for light-sheet fluorescence microscopy, producing a Z-stack of ~ 300–500 optical sections at 3 μm intervals, depending on spheroid size and maturation. (C) Quantification workflow in Imaris using the spot detection function to enumerate positive cells across the entire spheroid, providing precise volumetric data rather than estimates from a single section. Illustrations were created with BioRender.

    Techniques Used: Derivative Assay, Fluorescence, Microscopy



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    Image Search Results


    Schematic overview of the workflow for 2D and 3D analysis of hiPSC-derived neurospheres. (A) Generation of neurospheres from hiPSC, followed by fixation and preparation for either 2D cryosectioning or 3D tissue clearing. (B) Cleared neurospheres are embedded in agarose for light-sheet fluorescence microscopy, producing a Z-stack of ~ 300–500 optical sections at 3 μm intervals, depending on spheroid size and maturation. (C) Quantification workflow in Imaris using the spot detection function to enumerate positive cells across the entire spheroid, providing precise volumetric data rather than estimates from a single section. Illustrations were created with BioRender.

    Journal: Scientific Reports

    Article Title: Contribution of tissue clearing and 3D image analysis to in vitro modeling of human cortical development

    doi: 10.1038/s41598-026-41741-7

    Figure Lengend Snippet: Schematic overview of the workflow for 2D and 3D analysis of hiPSC-derived neurospheres. (A) Generation of neurospheres from hiPSC, followed by fixation and preparation for either 2D cryosectioning or 3D tissue clearing. (B) Cleared neurospheres are embedded in agarose for light-sheet fluorescence microscopy, producing a Z-stack of ~ 300–500 optical sections at 3 μm intervals, depending on spheroid size and maturation. (C) Quantification workflow in Imaris using the spot detection function to enumerate positive cells across the entire spheroid, providing precise volumetric data rather than estimates from a single section. Illustrations were created with BioRender.

    Article Snippet: Fig. 1 Schematic overview of the workflow for 2D and 3D analysis of hiPSC-derived neurospheres. (A) Generation of neurospheres from hiPSC, followed by fixation and preparation for either 2D cryosectioning or 3D tissue clearing. (B) Cleared neurospheres are embedded in agarose for light-sheet fluorescence microscopy, producing a Z-stack of ~ 300–500 optical sections at 3 μm intervals, depending on spheroid size and maturation. (C) Quantification workflow in Imaris using the spot detection function to enumerate positive cells across the entire spheroid, providing precise volumetric data rather than estimates from a single section.

    Techniques: Derivative Assay, Fluorescence, Microscopy