A framework for deriving analytic steady states of biochemical reaction networks
BS Hernandez, PVN Lubenia… - PLoS computational …, 2023 - journals.plos.org
The long-term behaviors of biochemical systems are often described by their steady states.
Deriving these states directly for complex networks arising from real-world applications …
Deriving these states directly for complex networks arising from real-world applications …
[HTML][HTML] Advancing Mathematical Epidemiology and Chemical Reaction Network Theory via Synergies Between Them
Our paper reviews some key concepts in chemical reaction network theory and
mathematical epidemiology, and examines their intersection, with three goals. The first is to …
mathematical epidemiology, and examines their intersection, with three goals. The first is to …
Embedding-based comparison of reaction networks of Wnt signaling
BS Hernandez, PVN Lubenia, ER Mendoza - arXiv preprint arXiv …, 2024 - arxiv.org
This work introduces a new method for comparing two reaction networks of the same or
closely related systems through their embedded networks in terms of the shared set of …
closely related systems through their embedded networks in terms of the shared set of …
A network-based parametrization of positive steady states of power-law kinetic systems
BS Hernandez, KDE Buendicho - Journal of Mathematical Chemistry, 2023 - Springer
Steady states are typically used to describe the long-term behaviors of chemical reaction
networks (CRNs). In 2019, Johnston et al. developed a method of parametrizing positive …
networks (CRNs). In 2019, Johnston et al. developed a method of parametrizing positive …
Comparison of reaction networks of Wnt signaling
BS Hernandez, PVN Lubenia, ER Mendoza - arXiv preprint arXiv …, 2023 - arxiv.org
Wnt signaling is a vital biological mechanism that regulates crucial development processes
and maintenance of tissue homeostasis. Here, we extended the parameter-free analysis of …
and maintenance of tissue homeostasis. Here, we extended the parameter-free analysis of …
Network transformation-based analysis of biochemical systems
DA Talabis, E Mendoza - Journal of Mathematical Biology, 2024 - Springer
A dynamical system obtains a wide variety of kinetic realizations, which is advantageous for
the analysis of biochemical systems. A reaction network, derived from a dynamical system …
the analysis of biochemical systems. A reaction network, derived from a dynamical system …
Comparison of reaction networks of insulin signaling
PVN Lubenia, ER Mendoza, AR Lao - arXiv preprint arXiv:2405.10486, 2024 - arxiv.org
Understanding the insulin signaling cascade provides insights on the underlying
mechanisms of biological phenomena such as insulin resistance, diabetes, Alzheimer's …
mechanisms of biological phenomena such as insulin resistance, diabetes, Alzheimer's …
Non-explosivity of endotactic stochastic reaction systems
C Xu - arXiv preprint arXiv:2409.05340, 2024 - arxiv.org
Reaction networks have been widely used as generic models in diverse areas of applied
science, such as biology, chemistry, ecology, epidemiology, and computer science …
science, such as biology, chemistry, ecology, epidemiology, and computer science …
A framework for deriving analytic long-term behavior of biochemical reaction networks
BS Hernandez, PVN Lubenia, MD Johnston, JK Kim - bioRxiv, 2022 - biorxiv.org
The long-term behaviors of biochemical systems are described by their steady states.
Deriving these states directly for complex networks arising from real-world applications …
Deriving these states directly for complex networks arising from real-world applications …
A decomposition-based approach for deriving positive steady states of a class of chemical reaction networks with non-mass-action kinetics
BS Hernandez, PVN Lubenia - arXiv preprint arXiv:2304.11594, 2023 - arxiv.org
Steady states are frequently used to investigate the long-term behaviors of (bio)-chemical
systems. Recently, there has been a growing interest in network-based approaches due to …
systems. Recently, there has been a growing interest in network-based approaches due to …