ODE under uncertainty

 ODE under uncertainty

use ODE model and noise to study epistasis using simulated yeast cell populations

No evidence that protein noise-induced epigenetic epistasis constrains gene expression evolution
Gábor Boross, Balázs Papp, 2016 MBE


Boros use analytic yeast glycolysis pathway model to study epigenetic interactions. Positive and negative epistasis were found by analyzing fitness of simulated large population of yeast cells with random levels of protein activities whose fitness is calculated with  a deterministic fitness function. 

linear and nonlinear ODEs

In essence, linear ODEs can be represented by dx_i/dt = matrix * X

nonlinear ODEs
http://eqworld.ipmnet.ru/en/solutions/ode/ode-toc3.htm

https://en.wikipedia.org/wiki/Linear_differential_equation

Online books, PDE, ODE

http://jerryfarlow.com/ode-books-online/

MATLAB ODE solver

ode15s

fmincon

http://laser.cheng.cam.ac.uk/wiki/images/e/e5/NumMeth_Handout_7.pdf