James M. Osborne
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View article: Quantifying biological heterogeneity in nano-engineered particle–cell interaction experiments
Quantifying biological heterogeneity in nano-engineered particle–cell interaction experiments Open
Nano-engineered particles are a promising tool for medical diagnostics, biomedical imaging and targeted drug delivery. Fundamental to the assessment of particle performance are in vitro particle–cell interaction experiments. These experime…
View article: Open Benchmarking for Cell-Based Multiscale Models: Lessons from a Community Initiative
Open Benchmarking for Cell-Based Multiscale Models: Lessons from a Community Initiative Open
The emergence of virtual human twins (VHT) in biomedical research has sparked interest in multiscale in silico modelling frameworks, particularly in their application bridging cellular to tissue levels. Among the diverse array of multiscal…
View article: Accounting for the geometry of the respiratory tract in viral infections
Accounting for the geometry of the respiratory tract in viral infections Open
Increasingly, experimentalists and modellers alike have come to recognise the important role of spatial structure in infection dynamics. Almost invariably, spatial computational models of viral infections - as with in vitro experimental sy…
View article: Spatially-Structured Models of Viral Dynamics: A Scoping Review
Spatially-Structured Models of Viral Dynamics: A Scoping Review Open
There is growing recognition in both the experimental and modelling literature of the importance of spatial structure to the dynamics of viral infections in tissues. Aided by the evolution of computing power and motivated by recent biologi…
View article: Competing mechanisms for the buckling of an epithelial monolayer identified using multicellular simulation
Competing mechanisms for the buckling of an epithelial monolayer identified using multicellular simulation Open
A model using the rigid body multi-cellular framework (RBMCF) is implemented to investigate the mechanisms of buckling of an epithelial monolayer. Specifically, the deformation of a monolayer of epithelial cells which are attached to a bas…
View article: Magnetic Gradiometry Survey at the Urban Centre of Türkmen‐Karahöyük (Turkey)
Magnetic Gradiometry Survey at the Urban Centre of Türkmen‐Karahöyük (Turkey) Open
The understanding of urban centres in the ancient Near East, one of the main regions for investigating the development of cities, has been transformed in recent years through investigations using archaeological geophysical prospection tool…
View article: Accounting for the geometry of the respiratory tract in viral infections
Accounting for the geometry of the respiratory tract in viral infections Open
Increasingly, experimentalists and modellers alike have come to recognise the important role of spatial structure in infection dynamics. Almost invariably, spatial computational models of viral infections - as with in vitro experimental sy…
View article: An adaptive numerical method for multi-cellular simulations of tissue development and maintenance
An adaptive numerical method for multi-cellular simulations of tissue development and maintenance Open
In recent years, multi-cellular models, where cells are represented as individual interacting entities, are becoming ever popular. This has led to a proliferation of novel methods and simulation tools. The first aim of this paper is to rev…
View article: Spatial information allows inference of the prevalence of direct cell–to–cell viral infection
Spatial information allows inference of the prevalence of direct cell–to–cell viral infection Open
The role of direct cell–to–cell spread in viral infections—where virions spread between host and susceptible cells without needing to be secreted into the extracellular environment—has come to be understood as essential to the dynamics of …
View article: AI and Conflicts Between CRA Shareholder Interests and FCRA
AI and Conflicts Between CRA Shareholder Interests and FCRA Open
View article: Competing mechanisms for the buckling of an epithelial monolayer identified using multicellular simulation
Competing mechanisms for the buckling of an epithelial monolayer identified using multicellular simulation Open
A model using the rigid body multi–cellular framework (RBMCF) is implemented to investigate the mechanisms of buckling of an epithelial mono-layer. Specifically, the deformation of a monolayer of epithelial cells which are attached to a ba…
View article: Protecting Consumer Rights and Sealed Records
Protecting Consumer Rights and Sealed Records Open
View article: An adaptive numerical method for multi–cellular simulations of tissue development
An adaptive numerical method for multi–cellular simulations of tissue development Open
In recent years, multi–cellular models, where cells are represented as individual interacting entities, are becoming ever popular. This has led to a proliferation of novel methods and simulation tools. The first aim of this paper is to rev…
View article: Spatial information allows inference of the prevalence of direct cell-to-cell viral infection
Spatial information allows inference of the prevalence of direct cell-to-cell viral infection Open
The role of direct cell-to-cell spread in viral infections - where virions spread between host and susceptible cells without needing to be secreted into the extracellular environment - has come to be understood as essential to the dynamics…
View article: Free and Interfacial Boundaries in Individual-Based Models of Multicellular Biological systems
Free and Interfacial Boundaries in Individual-Based Models of Multicellular Biological systems Open
View article: Editorial: Do individuals matter? - Individual-based versus population-based models applied to biology and health
Editorial: Do individuals matter? - Individual-based versus population-based models applied to biology and health Open
EDITORIAL article Front. Appl. Math. Stat., 05 September 2023Sec. Mathematical Biology Volume 9 - 2023 | https://doi.org/10.3389/fams.2023.1272392
View article: Choice of spatial discretisation influences the progression of viral infection within multicellular tissues
Choice of spatial discretisation influences the progression of viral infection within multicellular tissues Open
There has been an increasing recognition of the utility of models of the spatial dynamics of viral spread within tissues. Multicellular models, where cells are represented as discrete regions of space coupled to a virus density surface, ar…
View article: Mathematical models of developmental vascular remodelling: A review
Mathematical models of developmental vascular remodelling: A review Open
Over the past 40 years, there has been a strong focus on the development of mathematical models of angiogenesis, while developmental remodelling has received little such attention from the mathematical community. Sprouting angiogenesis can…
View article: ACTIVE REMODELLING OF TISSUES TO DESCRIBE BIPHASIC RHEOLOGICAL RESPONSES
ACTIVE REMODELLING OF TISSUES TO DESCRIBE BIPHASIC RHEOLOGICAL RESPONSES Open
Tissues form from collections of cells that interact together mechanically via cell-to-cell adhesion, mediated by transmembrane cell adhesion molecules. Under a sufficiently large amount of induced stress, these tissues can undergo elastic…
View article: Frontiers of Mathematical Biology: A workshop honouring Professor Edmund Crampin
Frontiers of Mathematical Biology: A workshop honouring Professor Edmund Crampin Open
• Edmund Crampin was Professor of Systems Biology at the University of Melbourne. He passed away on 15 May 2021. • A workshop in honour of Edmund was held at the University of Melbourne in November 2022. • 11 of his colleagues gave scienti…
View article: Free and interfacial boundaries in individual-based models of multicellular biological systems
Free and interfacial boundaries in individual-based models of multicellular biological systems Open
Coordination of cell behaviour is key to a myriad of biological processes including tissue morphogenesis, wound healing, and tumour growth. As such, individual-based computational models, which explicitly describe inter-cellular interactio…
View article: Multiscale modelling of desquamation in the interfollicular epidermis
Multiscale modelling of desquamation in the interfollicular epidermis Open
Maintenance of epidermal thickness is critical to the barrier function of the skin. Decreased tissue thickness, specifically in the stratum corneum (the outermost layer of the tissue), causes discomfort and inflammation, and is related to …
View article: Choice of spatial discretisation influences the progression of viral infection within multicellular tissues
Choice of spatial discretisation influences the progression of viral infection within multicellular tissues Open
There has been an increasing recognition of the utility of models of the spatial dynamics of viral spread within tissues. Multicellular models, where cells are represented as discrete regions of space coupled to a virus density surface, ar…
View article: Traffic Patterns of the Migrating Endothelium: How Force Transmission Regulates Vascular Malformation and Functional Shunting During Angiogenic Remodelling
Traffic Patterns of the Migrating Endothelium: How Force Transmission Regulates Vascular Malformation and Functional Shunting During Angiogenic Remodelling Open
Angiogenesis occurs in distinct phases: initial spouting is followed by remodelling in which endothelial cells (ECs) composing blood vessels rearrange by migrating against the direction of flow. Abnormal remodelling can result in vascular …
View article: Modelling realistic 3D deformations of simple epithelia in dynamic homeostasis
Modelling realistic 3D deformations of simple epithelia in dynamic homeostasis Open
The maintenance of tissue and organ structures during dynamic homeostasis is often not well understood. In order for a system to be stable, cell renewal, cell migration and cell death must be finely balanced. Moreover, a tissue's shape mus…
View article: Push or Pull? Cell Proliferation and Migration During Wound Healing
Push or Pull? Cell Proliferation and Migration During Wound Healing Open
Wound healing of the skin is a complex process that is still not well-understood. Wound management is expensive for both individuals and the health system overall, and can reduce quality of life for patients. Given these significant socio-…
View article: Model Integration in Computational Biology: The Role of Reproducibility, Credibility and Utility
Model Integration in Computational Biology: The Role of Reproducibility, Credibility and Utility Open
During the COVID-19 pandemic, mathematical modeling of disease transmission has become a cornerstone of key state decisions. To advance the state-of-the-art host viral modeling to handle future pandemics, many scientists working on related…
View article: Publisher Correction: A rigid body framework for multicellular modeling
Publisher Correction: A rigid body framework for multicellular modeling Open
View article: A simple history-dependent remeshing technique to increase finite element model stability in elastic surface deformations
A simple history-dependent remeshing technique to increase finite element model stability in elastic surface deformations Open
View article: Discovery of a novel class of D-amino acid oxidase (DAO) inhibitors with the Schrödinger computational platform
Discovery of a novel class of D-amino acid oxidase (DAO) inhibitors with the Schrödinger computational platform Open
D-Serine is a co-agonist of the N-methyl D-aspartate (NMDA) receptor, a key excitatory neurotransmitter receptor. In the brain, D-Serine is synthesized from its L-isomer by serine racemase and is metabolized by the D-amino acid oxidase (DA…