Approximate bayesian computation for stochastic single-cell time-lapse data using multivariate test statistics

Loos C, Marr C, Theis FJ, Hasenauer J (2015)

Publication Type: Conference contribution

Publication year: 2015

Journal

Lecture Notes in Computer Science Springer Verlag

Publisher: Springer Verlag

Book Volume: 9308

Pages Range: 52-63

Conference Proceedings Title: Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)

Event location: Nantes, FRA

ISBN: 9783319234007

DOI: 10.1007/978-3-319-23401-4_6

Abstract

Stochastic dynamics of individual cells are mostly modeled with continuous time Markov chains (CTMCs). The parameters of CTMCs can be inferred using likelihood-based and likelihood-free methods. In this paper, we introduce a likelihood-free approximate Bayesian computation (ABC) approach for single-cell time-lapse data. This method uses multivariate statistics on the distribution of single-cell trajectories. We evaluated our method for samples of a bivariate normal distribution as well as for artificial equilibrium and non-equilibrium single-cell time-series of a one-stage model of gene expression. In addition, we assessed our method for parameter variability and for the case of tree-structured time-series data. A comparison with an existing method using univariate statistics revealed an improved parameter identifiability using multivariate test statistics.

Involved external institutions

Helmholtz Zentrum München - Deutsches Forschungszentrum für Gesundheit und Umwelt (HMGU) / Helmholtz Munich DE Germany (DE)

How to cite

APA:

Loos, C., Marr, C., Theis, F.J., & Hasenauer, J. (2015). Approximate bayesian computation for stochastic single-cell time-lapse data using multivariate test statistics. In Olivier Roux, Jérémie Bourdon (Eds.), Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) (pp. 52-63). Nantes, FRA: Springer Verlag.

MLA:

Loos, Carolin, et al. "Approximate bayesian computation for stochastic single-cell time-lapse data using multivariate test statistics." Proceedings of the 13th International Conference on Computational Methods in Systems Biology, CMSB 2015, Nantes, FRA Ed. Olivier Roux, Jérémie Bourdon, Springer Verlag, 2015. 52-63.

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