| Paper Abstract and Keywords |
| Presentation |
2006-06-15 11:50
Bayesian system identification method for biochemical reaction systems
Junichiro Yoshimoto, Kenji Doya (OIST) |
| Abstract |
(in Japanese) |
(See Japanese page) |
| (in English) |
In a computational approach to life science, computer simulation is essential for verifying hypothetical kinetic models of intracellular molecular mechanisms. However, kinetic parameters used in simulation are often unidentified or unreliable. It is highly desired to develop a method that can automatically estimate the parameters from accessible experimental measurements with high confidence. In this report, we address this estimation problem and present a Bayesian method for solving it. Our contribution is to unify the following three issues in the framework of Bayesian inference: 1) identifying unknown parameters to reproduce experimental measurements; 2) representing confidence intervals of estimated parameters; and 3) visualizing the parameter space in which the kinetic behaviors are similar to experimental measurements. Existing methods rarely dealt with the last two issues. The effectiveness of our method is demonstrated in three benchmark problems. |
| Keyword |
(in Japanese) |
(See Japanese page) |
| (in English) |
signal transduction / biochemical kinetics / system identification / Bayesian inference / Metropolis-Hastings method / / / |
| Reference Info. |
IEICE Tech. Rep., vol. 106, no. 101, NC2006-14, pp. 31-36, June 2006. |
| Paper # |
NC2006-14 |
| Date of Issue |
2006-06-08 (NC) |
| ISSN |
Print edition: ISSN 0913-5685 |
| Download PDF |
|
| Conference Information |
| Committee |
NC |
| Conference Date |
2006-06-15 - 2006-06-16 |
| Place (in Japanese) |
(See Japanese page) |
| Place (in English) |
OIST |
| Topics (in Japanese) |
(See Japanese page) |
| Topics (in English) |
Bio-data Mining with Machine Learning and General |
| Paper Information |
| Registration To |
NC |
| Conference Code |
2006-06-NC |
| Language |
Japanese |
| Title (in Japanese) |
(See Japanese page) |
| Sub Title (in Japanese) |
(See Japanese page) |
| Title (in English) |
Bayesian system identification method for biochemical reaction systems |
| Sub Title (in English) |
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| Keyword(1) |
signal transduction |
| Keyword(2) |
biochemical kinetics |
| Keyword(3) |
system identification |
| Keyword(4) |
Bayesian inference |
| Keyword(5) |
Metropolis-Hastings method |
| Keyword(6) |
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| Keyword(7) |
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| Keyword(8) |
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| 1st Author's Name |
Junichiro Yoshimoto |
| 1st Author's Affiliation |
Okinawa Institute of Science and Technology (OIST) |
| 2nd Author's Name |
Kenji Doya |
| 2nd Author's Affiliation |
Okinawa Institute of Science and Technology (OIST) |
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| Speaker |
Author-1 |
| Date Time |
2006-06-15 11:50:00 |
| Presentation Time |
20 minutes |
| Registration for |
NC |
| Paper # |
NC2006-14 |
| Volume (vol) |
vol.106 |
| Number (no) |
no.101 |
| Page |
pp.31-36 |
| #Pages |
6 |
| Date of Issue |
2006-06-08 (NC) |