Moment closure and block updating for parameter inference in stochastic biological models

author: Peter Milner, School of Mathematics and Statistics, Newcastle University
published: April 16, 2009,   recorded: April 2009,   views: 2902

Slides

Related content

Report a problem or upload files

If you have found a problem with this lecture or would like to send us extra material, articles, exercises, etc., please use our ticket system to describe your request and upload the data.
Enter your e-mail into the 'Cc' field, and we will keep you updated with your request's status.
Lecture popularity: You need to login to cast your vote.
  Delicious Bibliography

Description

This talk will tackle one of the key problems in the new science of systems biology: inference for the rate parameters underlying complex stochastic kinetic biochemical network models, using partial, discrete and noisy time-course measurements of the system state. Although inference for exact stochastic models is possible, it is computationally intensive for relatively small networks, We explore the Bayesian estimation of stochastic kinetic rate parameters using approximate models, based on moment closure analysis of the underlying stochastic process. By assuming a Gaussian distribution and using moment-closure estimates of the first two moments, we can greatly increase the speed of parameter inference. The parameter space can be efficiently explored by embedding this approximation into an MCMC procedure. We impute the missing species using a bridge updating scheme where each proposed move is a bridge of length m. We investigate how the choice of m affects the efficiency of the sampling in a auto-regulatory gene network.

See Also:

Download slides icon Download slides: licsb09_milner_mcbu_01.pdf (1.8 MB)


Help icon Streaming Video Help

Link this page

Would you like to put a link to this lecture on your homepage?
Go ahead! Copy the HTML snippet !

Write your own review or comment:

make sure you have javascript enabled or clear this field: