A web-based application for automated quantification of chemical gradients induced in microfluidic devices
Cóndor, Mar (Universidad de Zaragoza) ; Rüberg, Thomas ; Borau Zamora, Carlos (Universidad de Zaragoza) ; Piles, Joan ; García-Aznar, José Manuel (Universidad de Zaragoza)
Resumen: Background and objective
Advances in microfabrication have allowed the development and popularization of microfluidic devices, which are powerful tools to recreate three-dimensional (3-D) biologically relevant in vitro models. These microenvironments are usually generated by using hydrogels and induced chemical gradients. Going further, computational models enable, after validation, the simulation of such conditions without the necessity of real experiments, thus saving costs and time. In this work we present a web-based application that allows, based on a previous numerical model, the assessment of different chemical gradients induced within a 3-D extracellular matrix.
Methods
This application enables the estimation of the spatio-temporal chemical distribution inside microfluidic devices, by defining a first set of parameters characterizing the chip geometry, and a second set characterizing the diffusion properties of the hydrogel-based matrix. The simulated chemical concentration profiles generated within a synthetic hydrogel are calculated remotely on a server and returned to the website in less than 3¿min, thus offering a quick automatic quantification to any user. To ensure the day-to-day applicability, user requirements were investigated prior to tool development, pre-selecting some of the most common geometries. The tool is freely available online, after user registration, on http://m2be.unizar.es/insilico_cell under the software tab.
Results
Four different microfluidic device geometries were defined to study the dependence of the geometrical parameters onto the gradient formation processes. The numerical predictions demonstrate that growth factor diffusion within 3-D matrices strongly depends not only on the physics of diffusion, but also on the geometrical parameters that characterizes these complex devices. Additionally, the effect of the combination of different hydrogels inside a microfluidic device was studied.
Conclusions
The automatization of microfluidic device geometries generation provide a powerful tool which facilitates to any user the possibility to automatically create its own microfluidic device, greatly reducing the experimental validation processes and advancing in the understanding of in-vitro 3-D cell responses without the necessity of using commercial software or performing real testing experiments.
Idioma: Inglés
DOI: 10.1016/j.compbiomed.2018.02.001
Año: 2018
Publicado en: COMPUTERS IN BIOLOGY AND MEDICINE 95 (2018), 118-128
ISSN: 0010-4825
Factor impacto JCR: 2.286 (2018)
Categ. JCR: BIOLOGY rank: 27 / 87 = 0.31 (2018) - Q2 - T1
Categ. JCR: MATHEMATICAL & COMPUTATIONAL BIOLOGY rank: 15 / 59 = 0.254 (2018) - Q2 - T1
Categ. JCR: ENGINEERING, BIOMEDICAL rank: 39 / 80 = 0.488 (2018) - Q2 - T2
Categ. JCR: COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS rank: 52 / 106 = 0.491 (2018) - Q2 - T2
Factor impacto SCIMAGO: 0.57 - Health Informatics (Q2) - Computer Science Applications (Q2)
Financiación: info:eu-repo/grantAgreement/ES/DGA/C126
Financiación: info:eu-repo/grantAgreement/EC/FP7/306571/EU/Predictive modelling and simulation in mechano-chemo-biology: a computer multi-approach/INSILICO-CELL
Financiación: info:eu-repo/grantAgreement/ES/MINECO/DPI2015-64221-C2-1-R
Tipo y forma: Article (PrePrint)
Área (Departamento): Área Mec.Med.Cont. y Teor.Est. (Dpto. Ingeniería Mecánica)
You must give appropriate credit, provide a link to the license, and indicate if changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use. You may not use the material for commercial purposes. If you remix, transform, or build upon the material, you may not distribute the modified material.
Exportado de SIDERAL (2020-11-13-08:47:01)
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Advances in microfabrication have allowed the development and popularization of microfluidic devices, which are powerful tools to recreate three-dimensional (3-D) biologically relevant in vitro models. These microenvironments are usually generated by using hydrogels and induced chemical gradients. Going further, computational models enable, after validation, the simulation of such conditions without the necessity of real experiments, thus saving costs and time. In this work we present a web-based application that allows, based on a previous numerical model, the assessment of different chemical gradients induced within a 3-D extracellular matrix.
Methods
This application enables the estimation of the spatio-temporal chemical distribution inside microfluidic devices, by defining a first set of parameters characterizing the chip geometry, and a second set characterizing the diffusion properties of the hydrogel-based matrix. The simulated chemical concentration profiles generated within a synthetic hydrogel are calculated remotely on a server and returned to the website in less than 3¿min, thus offering a quick automatic quantification to any user. To ensure the day-to-day applicability, user requirements were investigated prior to tool development, pre-selecting some of the most common geometries. The tool is freely available online, after user registration, on http://m2be.unizar.es/insilico_cell under the software tab.
Results
Four different microfluidic device geometries were defined to study the dependence of the geometrical parameters onto the gradient formation processes. The numerical predictions demonstrate that growth factor diffusion within 3-D matrices strongly depends not only on the physics of diffusion, but also on the geometrical parameters that characterizes these complex devices. Additionally, the effect of the combination of different hydrogels inside a microfluidic device was studied.
Conclusions
The automatization of microfluidic device geometries generation provide a powerful tool which facilitates to any user the possibility to automatically create its own microfluidic device, greatly reducing the experimental validation processes and advancing in the understanding of in-vitro 3-D cell responses without the necessity of using commercial software or performing real testing experiments.
Idioma: Inglés
DOI: 10.1016/j.compbiomed.2018.02.001
Año: 2018
Publicado en: COMPUTERS IN BIOLOGY AND MEDICINE 95 (2018), 118-128
ISSN: 0010-4825
Factor impacto JCR: 2.286 (2018)
Categ. JCR: BIOLOGY rank: 27 / 87 = 0.31 (2018) - Q2 - T1
Categ. JCR: MATHEMATICAL & COMPUTATIONAL BIOLOGY rank: 15 / 59 = 0.254 (2018) - Q2 - T1
Categ. JCR: ENGINEERING, BIOMEDICAL rank: 39 / 80 = 0.488 (2018) - Q2 - T2
Categ. JCR: COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS rank: 52 / 106 = 0.491 (2018) - Q2 - T2
Factor impacto SCIMAGO: 0.57 - Health Informatics (Q2) - Computer Science Applications (Q2)
Financiación: info:eu-repo/grantAgreement/ES/DGA/C126
Financiación: info:eu-repo/grantAgreement/EC/FP7/306571/EU/Predictive modelling and simulation in mechano-chemo-biology: a computer multi-approach/INSILICO-CELL
Financiación: info:eu-repo/grantAgreement/ES/MINECO/DPI2015-64221-C2-1-R
Tipo y forma: Article (PrePrint)
Área (Departamento): Área Mec.Med.Cont. y Teor.Est. (Dpto. Ingeniería Mecánica)
You must give appropriate credit, provide a link to the license, and indicate if changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use. You may not use the material for commercial purposes. If you remix, transform, or build upon the material, you may not distribute the modified material. Exportado de SIDERAL (2020-11-13-08:47:01)
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Este artículo se encuentra en las siguientes colecciones:
Articles > Artículos por área > Mec. de Medios Contínuos y Teor. de Estructuras
Record created 2018-02-21, last modified 2020-11-13