Name
Abstract | ||
|---|---|---|
Systems biology employs mathematical modelling to further our understanding of biochemical pathways. Since the amount of experimental data on which the models are parameterized is often limited, these models exhibit large uncertainty in both parameters and predictions. Statistical methods can be used to select experiments that will reduce such uncertainty in an optimal manner. However, existing methods for optimal experiment design (OED) rely on assumptions that are inappropriate when data are scarce considering model complexity.We have developed a novel method to perform OED for models that cope with large parameter uncertainty. We employ a Bayesian approach involving importance sampling of the posterior predictive distribution to predict the efficacy of a new measurement at reducing the uncertainty of a selected prediction. We demonstrate the method by applying it to a case where we show that specific combinations of experiments result in more precise predictions.Source code is available at: http://bmi.bmt.tue.nl/sysbio/software/pua.html. |
Year | DOI | Venue |
|---|---|---|
2012 | 10.1093/bioinformatics/bts092 | Bioinformatics |
Keywords | Field | DocType |
large uncertainty,supplementary data,large parameter uncertainty,novel method,optimal manner,targeted experiment design,bayesian approach,experimental data,experiments result,nl supplementary information,optimal experiment design,statistical method,experience design,algorithms,signal transduction,uncertainty,bayes theorem,monte carlo method,programming languages,systems biology | Data mining,Importance sampling,Experimental data,Computer science,Sensitivity analysis,Uncertainty analysis,Posterior predictive distribution,Bioinformatics,Bayesian probability,Design of experiments,Bayes' theorem | Journal |
Volume | Issue | ISSN |
28 | 8 | 1367-4811 |
Citations | PageRank | References |
20 | 1.33 | 12 |
Authors | ||
4 | ||
Name | Order | Citations | PageRank |
|---|---|---|---|
| J Vanlier | 1 | 35 | 2.83 |
| Christian A. Tiemann | 2 | 58 | 4.52 |
| P A J Hilbers | 3 | 117 | 10.52 |
| N A W van Riel | 4 | 34 | 2.76 |