A Theoretical Study on Multiscale Reaction Network Extracted from Single Molecule Time Series
Tahmina Sultana · Hokkaido University Collection of Scholarly and Academic Papers (Hokkaido University) · 2014
Day of the defense: Signature from head of PhD committee: ii Ensemble experiments can access only average characteristics of biomolecular systems, thus, the individual behavior of single molecules cannot be distinguished. In contrast, single molecule (SM) experiments manifest the detailed complexity in kinetics and dynamics of these multiscale biological processes at the single molecule level. The complex dynamics of single molecules, such as the On/O blinking of nano-particles, the opened/closed gating of ion channels, the bound/unbound kinetics in cell signaling processes, are often probed experimentally in the form of time series with finite discrete levels. The main goal of SM experiments is to extract kinetics and dynamical information from the observable time series. However, how one can extract such information from an observed one-dimensional time series is still an unresolved question. In the analysis of SM time series, hidden Markov models (HMM) are often used to provide insights on the complex mechanism of molecular machinery. To derive HMM from SM time series that incor-