Yoichiro Mori
Current Organizations / Institutes
The organizations/institutes from the scholar's latest article
Previous Organizations / Institutes
The organizations / institutes from the scholar's other articles in the past ten years
Research Subjects
Yoichiro Mori has a total of 68 co-authors. Here are the top co-authors by number of shared publications:
- Joshua B. Plotkin
Department of Biology, University of Pennsylvania, Philadelphia, USA
4 shared publications - Charles S. Peskin
Courant Institute of Mathematical Sciences, New York University, New York, USA
3 shared publications - Daniel Gomez
Department of Mathematics, University of Pennsylvania, Philadelphia, USA
3 shared publications - Po-Chun Kuo
Department of Mathematics, University of Pennsylvania, David Rittenhouse Lab., 209 South 33rd St., Philadelphia, PA 19104, USA
3 shared publications - Alex McAvoy
School of Data Science and Society, University of North Carolina at Chapel Hill, Chapel Hill, USA
2 shared publications - Analise Rodenberg
Department of Mathematics, Kennesaw State University, Marietta, USA
2 shared publications
Latest Publications
- 8 September 2026
- Published by Society for Industrial & Applied Mathematics (SIAM) in SIAM Journal on Applied Dynamical Systems
- Vol. 25 (3) , 2200-2240
Isochronal Phase Reduction and Speed Correction of a Pulse in a Stochastic Kinematic Model
We develop a method for computing the stochastic wave speed of pulse solutions in kinematic equations subject to small stochastic forcing based on the isochronal phase reduction. These kinematic equations arise as the singular limit of sharp pulse solutions in the FitzHugh–Nagumo system, and our approach contributes a new perspective and method to the growing body of work on stochastic wave propagation in excitable media. The method yields an effective Itô process for the wave’s position. The coefficients of the Itô process can be computed deterministically, allowing for efficient computation. We demonstrate the efficiency and accuracy of our method through numerical demonstrations.
- 8 September 2026
- Published by Society for Industrial & Applied Mathematics (SIAM) in SIAM Journal on Applied Dynamical Systems
- Vol. 25 (3) , 2200-2240
Isochronal Phase Reduction and Speed Correction of a Pulse in a Stochastic Kinematic Model
We develop a method for computing the stochastic wave speed of pulse solutions in kinematic equations subject to small stochastic forcing based on the isochronal phase reduction. These kinematic equations arise as the singular limit of sharp pulse solutions in the FitzHugh–Nagumo system, and our approach contributes a new perspective and method to the growing body of work on stochastic wave propagation in excitable media. The method yields an effective Itô process for the wave’s position. The coefficients of the Itô process can be computed deterministically, allowing for efficient computation. We demonstrate the efficiency and accuracy of our method through numerical demonstrations.
- Open Access
- 17 August 2026
- Published by Wiley in Studies in Applied Mathematics
- Vol. 157 (2)
Bulk‐Surface Coupled PDE With an Open Boundary
We study a bulk‐surface coupled Laplace system involving an embedded open boundary. The problem is reformulated as an integro‐differential equation using boundary integral representations, for which we establish existence and uniqueness of the solution. A Wiener–Hopf technique is employed to study the solution regularity and derive asymptotic expressions for the edge singularity. Building on these results, we develop a finite element method that incorporates the singularity structure, and we provide a rigorous error analysis. Numerical experiments confirm the theoretical convergence rates.
- 17 August 2026
- Published by Wiley in Studies in Applied Mathematics
- Vol. 157 (2)
Open AccessBulk‐Surface Coupled PDE With an Open Boundary
We study a bulk‐surface coupled Laplace system involving an embedded open boundary. The problem is reformulated as an integro‐differential equation using boundary integral representations, for which we establish existence and uniqueness of the solution. A Wiener–Hopf technique is employed to study the solution regularity and derive asymptotic expressions for the edge singularity. Building on these results, we develop a finite element method that incorporates the singularity structure, and we provide a rigorous error analysis. Numerical experiments confirm the theoretical convergence rates.
- 23 June 2026
- Published by Society for Industrial & Applied Mathematics (SIAM) in Multiscale Modeling & Simulation
- Vol. 24 (2) , 820-860
Strong Convergence with Error Estimates for a Stochastic Compartmental Model of Electrophysiology
This paper presents a rigorous mathematical analysis, alongside simulation studies, of a spatially extended stochastic electrophysiology model, the Hodgkin–Huxley model of the squid giant axon being a classical example. Although most studies in electrophysiology do not account for stochasticity, it is well known that ion channels regulating membrane voltage open and close randomly due to thermal fluctuations. We introduce a spatially extended compartmental model in which this stochastic behavior is captured through a piecewise-deterministic Markov process (PDMP). Space is discretized into [Formula: see text] compartments each of which has at most one ion channel. We also devise a numerical method to simulate this stochastic model and illustrate the numerical method by simulation studies. We show that a classical system of PDEs approximates the stochastic system as [Formula: see text]. Unlike existing results, which focus on weak convergence or convergence in probability, we establish an almost sure convergence result with a precise error bound of order [Formula: see text]. Our findings broaden the current understanding of stochastic effects in spatially structured neuronal models and have potential applications in studying random ion channel configurations in neurobiology. Additionally, our proof leverages ideas from homogenization theory in PDEs and can be applied to other PDMPs or accommodate other ion channel distributions with random spacing or defects.
- 23 June 2026
- Published by Society for Industrial & Applied Mathematics (SIAM) in Multiscale Modeling & Simulation
- Vol. 24 (2) , 820-860
Strong Convergence with Error Estimates for a Stochastic Compartmental Model of Electrophysiology
This paper presents a rigorous mathematical analysis, alongside simulation studies, of a spatially extended stochastic electrophysiology model, the Hodgkin–Huxley model of the squid giant axon being a classical example. Although most studies in electrophysiology do not account for stochasticity, it is well known that ion channels regulating membrane voltage open and close randomly due to thermal fluctuations. We introduce a spatially extended compartmental model in which this stochastic behavior is captured through a piecewise-deterministic Markov process (PDMP). Space is discretized into [Formula: see text] compartments each of which has at most one ion channel. We also devise a numerical method to simulate this stochastic model and illustrate the numerical method by simulation studies. We show that a classical system of PDEs approximates the stochastic system as [Formula: see text]. Unlike existing results, which focus on weak convergence or convergence in probability, we establish an almost sure convergence result with a precise error bound of order [Formula: see text]. Our findings broaden the current understanding of stochastic effects in spatially structured neuronal models and have potential applications in studying random ion channel configurations in neurobiology. Additionally, our proof leverages ideas from homogenization theory in PDEs and can be applied to other PDMPs or accommodate other ion channel distributions with random spacing or defects.
- 13 April 2026
- Published by Society for Industrial & Applied Mathematics (SIAM) in Multiscale Modeling & Simulation
- Vol. 24 (2) , 474-500
Modeling and Simulation of Open Membranes in Stokes Flow with Mixed-Dimensional Coupling
In this work, we present a mathematical and computational framework to model the dynamics of open lipid bilayer membranes interacting with ambient Stokes flow. The model explicitly couples the three-dimensional viscous fluid, the two-dimensional membrane surface, and its one-dimensional free edge. We develop an axisymmetric hybrid BEM-FEM method that solves the problem with an effective one-dimensional formulation. A key component is a local mesh refinement strategy designed to accurately resolve singularities and boundary layers originating at the membrane edge. Several numerical examples are provided to showcase its ability to capture intricate edge dynamics and multiscale fluid-membrane coupling.
- 13 April 2026
- Published by Society for Industrial & Applied Mathematics (SIAM) in Multiscale Modeling & Simulation
- Vol. 24 (2) , 474-500
Modeling and Simulation of Open Membranes in Stokes Flow with Mixed-Dimensional Coupling
In this work, we present a mathematical and computational framework to model the dynamics of open lipid bilayer membranes interacting with ambient Stokes flow. The model explicitly couples the three-dimensional viscous fluid, the two-dimensional membrane surface, and its one-dimensional free edge. We develop an axisymmetric hybrid BEM-FEM method that solves the problem with an effective one-dimensional formulation. A key component is a local mesh refinement strategy designed to accurately resolve singularities and boundary layers originating at the membrane edge. Several numerical examples are provided to showcase its ability to capture intricate edge dynamics and multiscale fluid-membrane coupling.
- 31 March 2026
- Published by IOP Publishing in Nonlinearity
- Vol. 39 (3) , 035025
Sharp interface dynamics in a minimal non-reciprocal Cahn–Hilliard system
Interest in non-reciprocally coupled systems recently led to the introduction of a minimal non-reciprocally coupled Cahn–Hilliard (CH) model by Brauns and Marchetti in 2024, which we refer to as the Brauns-Marchetti (BM) model. This model can be seen as a conservative counterpart to the spatially extended FitzHugh–Nagumo model. Lacking a gradient structure, the BM model was observed to exhibit interesting dynamics including travelling periodic wave-trains and other coherent structures, as well as spatiotemporal chaos in certain parameter regimes. In this paper, we derive an effective equation for the interface dynamics of solutions to the BM model in R 2 in the sharp-interface limit. The resulting system of equations is a generalization of the classical Mullins–Sekerka (MS) equations, which we refer to as the modified MS equations. We show that the modified MS equation shares some properties with its classical counterpart, but importantly, it is not in general a length minimizing flow. To illustrate the utility of this asymptotic reduction in the sharp interface limit, we perform a detailed analysis of stationary and periodic wave-trains, systematically deriving expressions for wave-train speeds and stability thresholds. The methods used here should be applicable to other non-reciprocally coupled CH models and therefore provide another avenue for their more detailed analysis.
- 31 March 2026
- Published by IOP Publishing in Nonlinearity
- Vol. 39 (3) , 035025
Sharp interface dynamics in a minimal non-reciprocal Cahn–Hilliard system
Interest in non-reciprocally coupled systems recently led to the introduction of a minimal non-reciprocally coupled Cahn–Hilliard (CH) model by Brauns and Marchetti in 2024, which we refer to as the Brauns-Marchetti (BM) model. This model can be seen as a conservative counterpart to the spatially extended FitzHugh–Nagumo model. Lacking a gradient structure, the BM model was observed to exhibit interesting dynamics including travelling periodic wave-trains and other coherent structures, as well as spatiotemporal chaos in certain parameter regimes. In this paper, we derive an effective equation for the interface dynamics of solutions to the BM model in R 2 in the sharp-interface limit. The resulting system of equations is a generalization of the classical Mullins–Sekerka (MS) equations, which we refer to as the modified MS equations. We show that the modified MS equation shares some properties with its classical counterpart, but importantly, it is not in general a length minimizing flow. To illustrate the utility of this asymptotic reduction in the sharp interface limit, we perform a detailed analysis of stationary and periodic wave-trains, systematically deriving expressions for wave-train speeds and stability thresholds. The methods used here should be applicable to other non-reciprocally coupled CH models and therefore provide another avenue for their more detailed analysis.
- Open Access
Well-posedness of the Langmuir film problem
We analyze the inviscid Langmuir layer--Stokesian subfluid (ILLSS) model for two-phase Langmuir monolayers coupled to a Stokes flow in the underlying subfluid. Eliminating the bulk variables, we reformulate the coupled three-dimensional system as an evolution on the film involving the Dirichlet-to-Neumann (DtN) operator. We identify the Fourier symbol of the DtN operator and show it coincides with that of the fractional Laplacian, which yields an explicit Fourier-multiplier representation and allows construction of the corresponding fundamental solution. Using this representation we express the surface velocity as a convolution of the fundamental solution with the interfacial curvature forcing and analyze its normal limit to derive a boundary integral equation for the moving curve. Independently, exploiting the DtN representation we establish a curve-shortening identity: the interfacial perimeter decreases monotonically and its time derivative is controlled by $\dot{H}^{1/2}(\mathbb{R}^2)$-norm of the surface velocity. Building on the boundary integral equation, we prove local well-posedness via maximal $L^2$-regularity for quasilinear parabolic systems, employing a DeTurck-type reparametrization, and show equivalence with the original ILLSS system. Finally, we introduce a linearly implicit parametric finite-element scheme which captures experimentally observed relaxation dynamics.
Open AccessWell-posedness of the Langmuir film problem
We analyze the inviscid Langmuir layer--Stokesian subfluid (ILLSS) model for two-phase Langmuir monolayers coupled to a Stokes flow in the underlying subfluid. Eliminating the bulk variables, we reformulate the coupled three-dimensional system as an evolution on the film involving the Dirichlet-to-Neumann (DtN) operator. We identify the Fourier symbol of the DtN operator and show it coincides with that of the fractional Laplacian, which yields an explicit Fourier-multiplier representation and allows construction of the corresponding fundamental solution. Using this representation we express the surface velocity as a convolution of the fundamental solution with the interfacial curvature forcing and analyze its normal limit to derive a boundary integral equation for the moving curve. Independently, exploiting the DtN representation we establish a curve-shortening identity: the interfacial perimeter decreases monotonically and its time derivative is controlled by $\dot{H}^{1/2}(\mathbb{R}^2)$-norm of the surface velocity. Building on the boundary integral equation, we prove local well-posedness via maximal $L^2$-regularity for quasilinear parabolic systems, employing a DeTurck-type reparametrization, and show equivalence with the original ILLSS system. Finally, we introduce a linearly implicit parametric finite-element scheme which captures experimentally observed relaxation dynamics.
- Open Access
- 25 November 2025
- Published by Springer Nature in Journal of Mathematical Biology
- Vol. 91 (6) , 85
Analytical Insights into Ephaptic Coupling and Its Effect on Conduction Velocity
Cardiovascular disease continues to be the leading cause of death in the United States. A major contributing factor is cardiac arrhythmia, which results from irregular electrical activity in the heart. On a tissue level, cardiac conduction involves the spread of action potentials (AP) across the heart, enabling coordinated contraction of the myocardium. On a cellular level, the transmission of signals between cells is facilitated by low-resistance pathways formed by gap junctions (GJs). Recent experimental studies have sparked discussion on whether GJs play a dominant role in cell communication. Interestingly, research has revealed that GJ knockout mice can still demonstrate signal propagation in the heart, albeit more slowly and discontinuously, indicating the presence of an alternative mechanism for cardiac conduction. Unlike GJ-mediated propagation, ephaptic coupling (EpC) has emerged as a distinct form of electrical transmission, characterized by contactless electrochemical signaling across the narrow intercalated discs (IDs) between cardiomyocytes. Advancements in cardiac research have highlighted the crucial role of EpC in restoring conduction by increasing conduction velocity (CV), reducing conduction block (CB), and terminating reentry arrhythmias, particularly when GJs are impaired. However, most EpC studies are either numerical or experimental, while analytical studies on ephaptic conduction–an equally important aspect of understanding EpC–remain extremely limited. In this paper, we applied asymptotic theory to calculate the CV in the presence of weak EpC. To achieve this, we developed both continuous and discrete models to describe ephaptic conduction along a strand of cells. Ionic dynamics were modeled using the piecewise linear and cubic functions. The resulting system represents a bistable system with weak EpC. We calculated an expression for CV in the presence of weak EpC for both models, and validated our analytical results with numerical simulations. Additionally, we showed that under weak EpC, CV can increase if the distribution of INa is more prominent on the end membrane.
- 25 November 2025
- Published by Springer Nature in Journal of Mathematical Biology
- Vol. 91 (6) , 85
Open AccessAnalytical Insights into Ephaptic Coupling and Its Effect on Conduction Velocity
Cardiovascular disease continues to be the leading cause of death in the United States. A major contributing factor is cardiac arrhythmia, which results from irregular electrical activity in the heart. On a tissue level, cardiac conduction involves the spread of action potentials (AP) across the heart, enabling coordinated contraction of the myocardium. On a cellular level, the transmission of signals between cells is facilitated by low-resistance pathways formed by gap junctions (GJs). Recent experimental studies have sparked discussion on whether GJs play a dominant role in cell communication. Interestingly, research has revealed that GJ knockout mice can still demonstrate signal propagation in the heart, albeit more slowly and discontinuously, indicating the presence of an alternative mechanism for cardiac conduction. Unlike GJ-mediated propagation, ephaptic coupling (EpC) has emerged as a distinct form of electrical transmission, characterized by contactless electrochemical signaling across the narrow intercalated discs (IDs) between cardiomyocytes. Advancements in cardiac research have highlighted the crucial role of EpC in restoring conduction by increasing conduction velocity (CV), reducing conduction block (CB), and terminating reentry arrhythmias, particularly when GJs are impaired. However, most EpC studies are either numerical or experimental, while analytical studies on ephaptic conduction–an equally important aspect of understanding EpC–remain extremely limited. In this paper, we applied asymptotic theory to calculate the CV in the presence of weak EpC. To achieve this, we developed both continuous and discrete models to describe ephaptic conduction along a strand of cells. Ionic dynamics were modeled using the piecewise linear and cubic functions. The resulting system represents a bistable system with weak EpC. We calculated an expression for CV in the presence of weak EpC for both models, and validated our analytical results with numerical simulations. Additionally, we showed that under weak EpC, CV can increase if the distribution of INa is more prominent on the end membrane.
- Open Access
Sharp Interface Dynamics in a Minimal Non-Reciprocal Cahn-Hilliard System
Interest in non-reciprocally coupled systems recently led to the introduction of a minimal non-reciprocally coupled Cahn-Hilliard (CH) model by Brauns and Marchetti in 2024 arXiv:2306.08868, which we refer to as the Brauns-Marchetti (BM) model. This model can be seen as a conservative counterpart to the spatially extended FitzHugh-Nagumo model. Lacking a gradient structure, the BM model was observed to exhibit interesting dynamics including traveling periodic wave-trains and other coherent structures, as well as spatiotemporal chaos in certain parameter regimes. In this paper, we derive an effective equation for the interface dynamics of solutions to the BM model in $\mathbb{R}^2$ in the sharp-interface limit. The resulting system of equations is a generalization of the classical Mullins-Sekerka (MS) equations, which we refer to as the modified MS equations. We show that the modified MS equation shares some properties with its classical counterpart, but importantly, it is not in general a length minimizing flow. To illustrate the utility of this asymptotic reduction in the sharp interface limit, we perform a detailed analysis of stationary and periodic wave-trains, systematically deriving expressions for wave-train speeds and stability thresholds. The methods used here should be applicable to other non-reciprocally coupled CH models and therefore provide another avenue for their more detailed analysis.Open AccessSharp Interface Dynamics in a Minimal Non-Reciprocal Cahn-Hilliard System
Interest in non-reciprocally coupled systems recently led to the introduction of a minimal non-reciprocally coupled Cahn-Hilliard (CH) model by Brauns and Marchetti in 2024 arXiv:2306.08868, which we refer to as the Brauns-Marchetti (BM) model. This model can be seen as a conservative counterpart to the spatially extended FitzHugh-Nagumo model. Lacking a gradient structure, the BM model was observed to exhibit interesting dynamics including traveling periodic wave-trains and other coherent structures, as well as spatiotemporal chaos in certain parameter regimes. In this paper, we derive an effective equation for the interface dynamics of solutions to the BM model in $\mathbb{R}^2$ in the sharp-interface limit. The resulting system of equations is a generalization of the classical Mullins-Sekerka (MS) equations, which we refer to as the modified MS equations. We show that the modified MS equation shares some properties with its classical counterpart, but importantly, it is not in general a length minimizing flow. To illustrate the utility of this asymptotic reduction in the sharp interface limit, we perform a detailed analysis of stationary and periodic wave-trains, systematically deriving expressions for wave-train speeds and stability thresholds. The methods used here should be applicable to other non-reciprocally coupled CH models and therefore provide another avenue for their more detailed analysis. - 1 July 2025
- Published by Society for Industrial & Applied Mathematics (SIAM) in SIAM Journal on Mathematical Analysis
- Vol. 57 (4) , 3454-3487
The Immersed Inextensible Interface Problem in 2D Stokes Flow
We study the dynamics of an inextensible, closed interface subject to bending forces and immersed in a two-dimensional and incompressible Stokes fluid. We formulate the problem as a boundary integral equation in terms of the tangent angle and demonstrate the well-posedness in suitable time-weighted spaces of the resulting nonlinear and nonlocal system. The solution is furthermore shown to be smooth for positive times. Numerical computations are performed to initiate the study of the long-time behavior of the interface.
- 1 July 2025
- Published by Society for Industrial & Applied Mathematics (SIAM) in SIAM Journal on Mathematical Analysis
- Vol. 57 (4) , 3454-3487
The Immersed Inextensible Interface Problem in 2D Stokes Flow
We study the dynamics of an inextensible, closed interface subject to bending forces and immersed in a two-dimensional and incompressible Stokes fluid. We formulate the problem as a boundary integral equation in terms of the tangent angle and demonstrate the well-posedness in suitable time-weighted spaces of the resulting nonlinear and nonlocal system. The solution is furthermore shown to be smooth for positive times. Numerical computations are performed to initiate the study of the long-time behavior of the interface.
- 14 January 2025
- Published by World Scientific Pub Co Pte Ltd in Mathematical Models and Methods in Applied Sciences
- Vol. 35 (01) , 113-216
Well-posedness of the 3D Peskin problem
This paper introduces the 3D Peskin problem: a two-dimensional elastic membrane immersed in a three-dimensional steady Stokes flow. We obtain the equations that model this free boundary problem and show that they admit a boundary integral reduction, providing an evolution equation for the elastic interface. We consider general nonlinear elastic laws, i.e. the fully nonlinear Peskin problem, and prove that the problem is well-posed in low-regularity Hölder spaces. Moreover, we prove that the elastic membrane becomes smooth instantly in time.
- 14 January 2025
- Published by World Scientific Pub Co Pte Ltd in Mathematical Models and Methods in Applied Sciences
- Vol. 35 (01) , 113-216
Well-posedness of the 3D Peskin problem
This paper introduces the 3D Peskin problem: a two-dimensional elastic membrane immersed in a three-dimensional steady Stokes flow. We obtain the equations that model this free boundary problem and show that they admit a boundary integral reduction, providing an evolution equation for the elastic interface. We consider general nonlinear elastic laws, i.e. the fully nonlinear Peskin problem, and prove that the problem is well-posed in low-regularity Hölder spaces. Moreover, we prove that the elastic membrane becomes smooth instantly in time.