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3d comsol simulation model  (COMSOL Inc)

 
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    COMSOL Inc 3d comsol simulation model
    3d Comsol Simulation Model, supplied by COMSOL Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/3d+comsol+model/comsol+multiphysics/pmc10436375__tg3c00012_si_001-11-0-1
    Average 90 stars, based on 1 article reviews
    3d comsol simulation model - by Bioz Stars, 2026-10
    90/100 stars

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    Related Articles

    Chemotaxis Assay:

    Article Title: Biomimetic Chemotactic Motion of Self‐Assembling Doublet Microrobots
    Article Snippet: .. Finite element simulations: to simulate the motion and the chemotaxis of doublets in H2O2, we constructed a 3D COMSOL model where two spheres, each 5 μm in diameter, are placed at the center of a cubic box with sides measuring 100 μm (see Figure S3, Supporting Information). ..

    Construct:

    Article Title: Biomimetic Chemotactic Motion of Self‐Assembling Doublet Microrobots
    Article Snippet: .. Finite element simulations: to simulate the motion and the chemotaxis of doublets in H2O2, we constructed a 3D COMSOL model where two spheres, each 5 μm in diameter, are placed at the center of a cubic box with sides measuring 100 μm (see Figure S3, Supporting Information). ..

    other:

    Article Title: Computational fluid dynamic modeling of pressure and velocity in a water aspirator
    Article Snippet: Fig. 3 a) 3D COMSOL model with overlaid maps of a) pressure b) for water inflow of 0.1 kg/s; c) experimental values and simulation of pressure drop (20 o C) vs. mass flow rate bottom axis is in kg/s and top axis is in m/s (from b–d, red point 5 – p 4 ).

    Article Title: Actuation and Mapping of Surface Acoustic Wave Induced High-Frequency Wavefields on Suspended Graphene Membranes
    Article Snippet: The 3D COMSOL model was built to model the vibration of multilayer graphene suspended over a cylindrical cavity filled with air.

    Diffusion-based Assay:

    Article Title: Supporting Information for Microbial Community Interactions on a Chip
    Article Snippet: .. Finite element modeling (FEM) of small molecule diffusion in the 6 mm pitch μCI device. (A) 3D COMSOL model of diffusion within the μCI device. (B) FEM diffusion profile across the agar surface of the combination well (where the target microbes reside). (C) Fluorescence diffusion profile of rhodamine 6G across the combination well (same as Fig. S1C, panel 3). ..

    Fluorescence:

    Article Title: Supporting Information for Microbial Community Interactions on a Chip
    Article Snippet: .. Finite element modeling (FEM) of small molecule diffusion in the 6 mm pitch μCI device. (A) 3D COMSOL model of diffusion within the μCI device. (B) FEM diffusion profile across the agar surface of the combination well (where the target microbes reside). (C) Fluorescence diffusion profile of rhodamine 6G across the combination well (same as Fig. S1C, panel 3). ..

    Biomarker Discovery:

    Article Title: An integrative round window membrane/cochlear microphysiological system with sensing components for the study of real-time drug response.
    Article Snippet: Most hearing loss often results from permanent damage to cochlear hair cells, and effective treatments remain limited.. A reliable, scalable, and physiologically relevant ear model can accelerate the development of hearing-loss protection therapeutics for injury prevention and hearing restoration.. The challenge remains on screening delivery systems for regenerative compounds, and no in vitro screening systems exist that capture the complexity of inner ear properties.



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    (A) Schematic illustrating 2D vs <t>3D</t> tissue cultures. (B) Schematic diagram showing that <t>while</t> <t>necrosis</t> is not a concern for smaller organoids, it occurs in the dense core regions of larger organoids. (C) Workflow of our overall strategy for computational modeling of necrosis within 3D culture using NOs. We identify necrosis in stained slices of NOs ( left ) and fit the percentage (%) of necrotic area to get the respective Damköhler number ( Da ) ( middle ) and proceed with parametric studies for the NO in our 3D CAD models ( right ).
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    Image Search Results


    (A) Schematic illustrating 2D vs 3D tissue cultures. (B) Schematic diagram showing that while necrosis is not a concern for smaller organoids, it occurs in the dense core regions of larger organoids. (C) Workflow of our overall strategy for computational modeling of necrosis within 3D culture using NOs. We identify necrosis in stained slices of NOs ( left ) and fit the percentage (%) of necrotic area to get the respective Damköhler number ( Da ) ( middle ) and proceed with parametric studies for the NO in our 3D CAD models ( right ).

    Journal: bioRxiv

    Article Title: Computational modeling of necrosis in neural organoids

    doi: 10.1101/2025.04.30.651571

    Figure Lengend Snippet: (A) Schematic illustrating 2D vs 3D tissue cultures. (B) Schematic diagram showing that while necrosis is not a concern for smaller organoids, it occurs in the dense core regions of larger organoids. (C) Workflow of our overall strategy for computational modeling of necrosis within 3D culture using NOs. We identify necrosis in stained slices of NOs ( left ) and fit the percentage (%) of necrotic area to get the respective Damköhler number ( Da ) ( middle ) and proceed with parametric studies for the NO in our 3D CAD models ( right ).

    Article Snippet: We developed a 3D computational model (COMSOL Multiphysics) to investigate the progression of necrosis in NO culture.

    Techniques: Staining

    ( A ) Confocal microscopy of NO cultures at ( i-vi ) static state, ( vii-xii ) oOrbital shaking at 88 RPM. Nuclei stained with Hoechst 33342 ( blue ), neuronal staining with HMGB-1 ( green ) and βIII-tubulin ( red ), and apoptosis markers with TUNEL ( pink ). A yellow dotted line indicates the necrotic area. The scale bar is 50 μm. ( B ) Experimental estimation of percentage (%) necrotic area of NO. The sample size used was n=3. ( C ) Geometry and mesh of the calibration model; ( D ) Calibration curve of % percentage necrotic area vs Da across diffusion and reaction dominated regions. Using the % necrotic area of NO at static state and 88 RPM as shown in ( B ), we find a corresponding Da . We found reasonable agreement with both experimental ranges at Da≈ 8.1. ( E ) 3D simulation showing oxygen consumption and necrosis across an irregular NO (like experimental sample) with equivalent radius (650 μm) at Da = 8.1. Critical oxygen concentration is assumed to be 0.05 mol/m .

    Journal: bioRxiv

    Article Title: Computational modeling of necrosis in neural organoids

    doi: 10.1101/2025.04.30.651571

    Figure Lengend Snippet: ( A ) Confocal microscopy of NO cultures at ( i-vi ) static state, ( vii-xii ) oOrbital shaking at 88 RPM. Nuclei stained with Hoechst 33342 ( blue ), neuronal staining with HMGB-1 ( green ) and βIII-tubulin ( red ), and apoptosis markers with TUNEL ( pink ). A yellow dotted line indicates the necrotic area. The scale bar is 50 μm. ( B ) Experimental estimation of percentage (%) necrotic area of NO. The sample size used was n=3. ( C ) Geometry and mesh of the calibration model; ( D ) Calibration curve of % percentage necrotic area vs Da across diffusion and reaction dominated regions. Using the % necrotic area of NO at static state and 88 RPM as shown in ( B ), we find a corresponding Da . We found reasonable agreement with both experimental ranges at Da≈ 8.1. ( E ) 3D simulation showing oxygen consumption and necrosis across an irregular NO (like experimental sample) with equivalent radius (650 μm) at Da = 8.1. Critical oxygen concentration is assumed to be 0.05 mol/m .

    Article Snippet: We developed a 3D computational model (COMSOL Multiphysics) to investigate the progression of necrosis in NO culture.

    Techniques: Confocal Microscopy, Staining, TUNEL Assay, Diffusion-based Assay, Concentration Assay

    (A-C) 3D geometry of NO culture strategy using (A) static culture, (B) orbital shaking, and (C) microfluidic flow around the NO. (D) Visualization of the necrotic area by plotting O 2 concentration in a NO slice. The core area marked by the dotted yellow line has an O 2 concentration below the critical O 2 concentration of 0.05 mol/m and is necrotic. (D-F) Computational estimation of necrosis in a NO by plotting O 2 concentration across an NO between 500-1000 μ m (diameter). ( D ) For a 500 μ m NO cultured using, (i) static culture (ii) orbital shaking, and (iii) microfluidic flow around NO. (iv) O 2 concentration across NO on a cutline at y=0 for all three cases. The blue-shaded region represents the area below the critical O 2 concentration, which determines the necrotic area. We observe viable NOs with no necrosis in all culture strategies. (E) For a 650 μ m NO cultured using (i) static culture (ii) orbital shaking, and (iii) microfluidic flow around NO. (iv) O 2 concentration across NO on a cutline at y=0 for all three cases. The blue-shaded region represents the area below the critical O 2 concentration, which determines the necrotic area. We observe that orbital shaking improves the NO viability in comparison to the other two culture strategies. (F) For a 1000 μ m NO cultured using, (i) static culture, (ii) orbital shaking, and (iii) microfluidic flow around NO. (iv) O 2 concentration across the NO on a cutline at y=0 for all three cases. The blue-shaded region represents the area below the critical O 2 concentration, which determines the necrotic area. We observe that all strategies show significant necrotic cores.

    Journal: bioRxiv

    Article Title: Computational modeling of necrosis in neural organoids

    doi: 10.1101/2025.04.30.651571

    Figure Lengend Snippet: (A-C) 3D geometry of NO culture strategy using (A) static culture, (B) orbital shaking, and (C) microfluidic flow around the NO. (D) Visualization of the necrotic area by plotting O 2 concentration in a NO slice. The core area marked by the dotted yellow line has an O 2 concentration below the critical O 2 concentration of 0.05 mol/m and is necrotic. (D-F) Computational estimation of necrosis in a NO by plotting O 2 concentration across an NO between 500-1000 μ m (diameter). ( D ) For a 500 μ m NO cultured using, (i) static culture (ii) orbital shaking, and (iii) microfluidic flow around NO. (iv) O 2 concentration across NO on a cutline at y=0 for all three cases. The blue-shaded region represents the area below the critical O 2 concentration, which determines the necrotic area. We observe viable NOs with no necrosis in all culture strategies. (E) For a 650 μ m NO cultured using (i) static culture (ii) orbital shaking, and (iii) microfluidic flow around NO. (iv) O 2 concentration across NO on a cutline at y=0 for all three cases. The blue-shaded region represents the area below the critical O 2 concentration, which determines the necrotic area. We observe that orbital shaking improves the NO viability in comparison to the other two culture strategies. (F) For a 1000 μ m NO cultured using, (i) static culture, (ii) orbital shaking, and (iii) microfluidic flow around NO. (iv) O 2 concentration across the NO on a cutline at y=0 for all three cases. The blue-shaded region represents the area below the critical O 2 concentration, which determines the necrotic area. We observe that all strategies show significant necrotic cores.

    Article Snippet: We developed a 3D computational model (COMSOL Multiphysics) to investigate the progression of necrosis in NO culture.

    Techniques: Concentration Assay, Cell Culture, Comparison

    (A-C) Varying synthetic capillary density to determine optimal layout to eliminate necrosis. We varied the density in the grid layout containing (A) 1, (B) 4, and (C) 9 capillaries. We maintain a flow rate of 200 μL/min. (D-F) O 2 concentration across NO on a cutline at z=0 for the three capillary densities. (G-I) Stacked 3D visual representation of O 2 concentration across the NO for the three capillary densities. (D&G) 1 capillary system causes high necrosis. ( E&H ) 4 capillary system necrosis reduces, but the organoid is not viable. (F&I) We observe no necrosis in the 9-capillary system.

    Journal: bioRxiv

    Article Title: Computational modeling of necrosis in neural organoids

    doi: 10.1101/2025.04.30.651571

    Figure Lengend Snippet: (A-C) Varying synthetic capillary density to determine optimal layout to eliminate necrosis. We varied the density in the grid layout containing (A) 1, (B) 4, and (C) 9 capillaries. We maintain a flow rate of 200 μL/min. (D-F) O 2 concentration across NO on a cutline at z=0 for the three capillary densities. (G-I) Stacked 3D visual representation of O 2 concentration across the NO for the three capillary densities. (D&G) 1 capillary system causes high necrosis. ( E&H ) 4 capillary system necrosis reduces, but the organoid is not viable. (F&I) We observe no necrosis in the 9-capillary system.

    Article Snippet: We developed a 3D computational model (COMSOL Multiphysics) to investigate the progression of necrosis in NO culture.

    Techniques: Concentration Assay