5 papers
The finest decompositions' architecture of a reaction network
Bryan S. Hernandez, Juan Paolo C. Santos, Patrick Vincent N. Lubenia +1
Biochemical and environmental modeling typically relies on reaction networks to represent complex transformations. While the Linkage Class Decomposition (LCD) partitions networks b…
The Long-Term Impact of Direct Capture Approaches to Carbon Dioxide Removal
Al Jay Lan J. Alamin, Melquezedec James T. Cruz, Bryan S. Hernandez +1
Understanding the similarities and differences of the long term impact of different carbon dioxide removal (CDR) techniques is essential in determining the most effective and susta…
Comparison of reaction networks of insulin signaling
Patrick Vincent N. Lubenia, Eduardo R. Mendoza, Angelyn R. Lao
Understanding the insulin signaling cascade provides insights on the underlying mechanisms of biological phenomena such as insulin resistance, diabetes, Alzheimer's disease, and ca…
Embedding-based comparison of reaction networks of Wnt signaling
Bryan S. Hernandez, Patrick Vincent N. Lubenia, Eduardo R. Mendoza
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 species.…
Equilibria decomposition-based comparison of reaction networks of Wnt signaling
Bryan S. Hernandez, Patrick Vincent N. Lubenia, Eduardo R. Mendoza
The Wnt signaling pathway plays a critical role in various biochemical processes, including embryonic development, tissue homeostasis, and cancer progression. In this paper, we con…