Modeling intercellular calcium dynamics in an epithelial organ using Dynamic Mode Decomposition ?

摘要

Calcium ions (Ca2+) are versatile, yet critical components of molecular communication networks. Cells have developed complex mechanisms to maintain homeostasis of Ca2+concentration levels within cytoplasm. Both at the cellular and tissue levels, information is transferred through complex dynamical patterns of Ca2+signals. Since Ca2+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 Ca2+dynamics based on Dynamic Mode Decomposition (DMD) to study the dynamics of Ca2+signaling inDrosophila melanogasterwing disc in late larval stages. This system is amenable to studying Ca2+signaling in a developing epithelium. Experimentally, it is observed that Ca2+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 Ca2+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 Ca2+signaling dynamics encode the differentiation state of cells in the system.