Multiphysics Simulation of Biosensors Involving 3D Biological Reaction–Diffusion Phenomena in a Standard Circuit EDA Environment

Madec, Morgan; Hébrard, Luc; Kammerer, Jean-Baptiste; Bonament, Alexi; Rosati, Elise; Lallement, Christophe

doi:10.1109/tcsi.2018.2885223

Cited by 8 publications

(2 citation statements)

References 43 publications

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“…( 4) indicates that, for node 1, in addition to a resistor which connects it to node 2, there should be an additional resistor R = 1/K F A connected to the ground and an additional dependent current source Once the above described conceptual mapping to circuit elements is done, transient diffusion problems could be easily solved using EDA tools, thus reducing the computational complexity. We note that a similar approach was reported earlier 22 to solve transient diffusion problems of single species for ISFET sensors. However, they used different formalism for R and C (R = x 2 /D, and C = 1, which results in the same RC product as our proposed scheme).…”

Section: Model System and Methodologymentioning

confidence: 70%

Electronic Circuit Inspired Optimization of Nanogap Electrochemical Biosensors

Joshi¹,

Nair²

2019

Preprint

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Electrochemical biosensors and the related concept of redox detection at nanogap electrodes are increasingly explored for ultra-sensitive detection of biomolecules. While experimental demonstrations have been encouraging, the associated design and optimization of electrode geometry, beyond the simple one-dimensional architectures, is inherently challenging from multiple aspects related to numerical complexity. Here we develop a facile simulation scheme to address this challenge using well established electronic circuit analysis techniques that are available as open source-ware. Based on this approach, we show that electrode geometry, especially nano-structured redox electrodes on a planar surface, has interesting implications on the detection limits and settling time of electrochemical biosensors. The methodology we developed and the insights obtained could be useful for electrode optimization for a wide variety of problems ranging from biosensors to electrochemical storage.

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Section: Model System and Methodologymentioning

confidence: 70%

Electronic Circuit Inspired Optimization of Nanogap Electrochemical Biosensors

Joshi¹,

Nair²

2019

Preprint

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“…However, for the sake of simplicity, only uniform lattice will be considered in this paper. Details on the way the mesher works are given in [10].…”

Section: A Overview Of the Modelmentioning

confidence: 99%

Compact Modeling of Reaction-Diffusion-Advection Mechanisms for the Virtual Prototyping of Lab-on-Chip

Bonament

Madec

Lallement

2021

2021 IEEE International Symposium on Circuits and Systems (ISCAS)

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The topic of this paper is the development of compact models reaction-advection-diffusion phenomenon compatible with a SPICE simulation environment. From a mathematical perspective, biological systems that involve such phenomena are described by partial differential equations, which are not naturally handeled by SPICE. Our approach consists of discretizing these equations according to the finitedifference method and converting the resulting set of ordinary differential equations into an assembly of elementary equivalent electronic circuits written in Verilog-A. The main interest of this approach is the capability of coupling such models with thirdparty SPICE models of electronic circuits, sensors and transducers as well as biochemical models that can also be written in SPICE. The tool is validated both on simple problems for which analytical solutions are known and by comparison with a finite element simulator of reference: COMSOL Multiphysics.

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