Modeling intercellular calcium dynamics in an epithelial organ using Dynamic Mode Decomposition
Year: 2018
Type: article
Abstract: Calcium ions (Ca 2+ ) are versatile, yet critical components of molecular communication networks. Cells have developed complex mechanisms to maintain homeostasis of Ca 2+ concentration levels within cytoplasm. Both at the cellular and tissue levels, information is transferred through complex dynamical patterns of Ca 2+ signals. Since Ca 2+ is involved in the regulation of various biological processes, understanding its dynamics is a valuable source of information with potential applications in systems and synthetic biology. However, modeling such complicated dynamics is a challenge in systems biology. In this work, we present a data driven analysis of Ca 2+ dynamics based on Dynamic Mode Decomposition (DMD) to study the dynamics of Ca 2+ signaling in Drosophila melanogaster wing disc in late larval stages. This system is amenable to studying Ca 2+ signaling in a developing epithelium. Experimentally, it is observed that Ca 2+ dynamics show different dynamical patterns depending on genetic perturbations. Therefore, from a systems biology perspective, devising a reasonable model to capture various dynamical patterns can shed light into interplay between dynamics and various biological processes. The dynamics of Ca 2+ is analyzed using a first-order state space model approximated by DMD algorithm. DMD modes and eigenvalues of the derived model was investigated to identify coherent spatial and temporal patterns that reflect the known morphogenetic boundaries of the organ. This implies that Ca 2+ signaling dynamics encode the differentiation state of cells in the system.
Source: IFAC-PapersOnLine
Institution: University of Notre Dame
Language: English
Subfield: Statistical and Nonlinear Physics
Field: Physics and Astronomy
Domain: Physical Sciences
Open Access status: diamond
OpenAlex ID: W2893365175