Molecular finite-size effects in stochastic models of equilibrium chemical systems
- Event time: 11:30am
- Event date: 25th November 2015
- Speaker: Ramon Grima (Systems Biology)
- Location: Room 2511, James Clerk Maxwell Building (JCMB) James Clerk Maxwell Building Peter Guthrie Tait Road Edinburgh EH9 3FD GB
The reaction-diffusion master equation (RDME) is a standard modelling approach for understanding stochastic and spatial chemical kinetics. An inherent assumption is that molecules are point-like. This assumption is fine for dilute systems however experiments show that reactions inside cells occur in non-dilute conditions, i.e., highly crowded conditions. I will here introduce the crowded reaction-diffusion master equation (cRDME) which takes into account volume exclusion effects on stochastic kinetics due to a finite molecular radius. I will discuss how its possible to obtain an exact closed form solution of the cRDME for a general chemical system in equilibrium conditions. This solution enables us to deduce that an increase in molecular crowding can (i) lead to deviations from the classical inverse square root law for the noise-strength; (ii) flip the skewness of the probability distribution from right to left-skewed; (iii) shift the equilibrium of bimolecular reactions so that more product molecules are formed; (iv) strongly modulate the Fano factors and coefficients of variation.
This is a roughly weekly series of didactical blackboard talks focussing on some theoretical aspect of Condensed Matter, Biological, and Statistical Physics..