Probability metrics to calibrate stochastic chemical kinetics

Koeppl, Heinz; Setti, Gianluca; Pelet, Serge; Mangia, Mauro; Petrov, Tatjana; Peter, Matthias

Probability metrics to calibrate stochastic chemical kinetics

Dateien

Zu diesem Dokument gibt es keine Dateien.

Datum

2010

Autor:innen

Koeppl, Heinz

Setti, Gianluca

Pelet, Serge

Mangia, Mauro

Petrov, Tatjana

Peter, Matthias

DOI (zitierfähiger Link)

https://doi.org/10.1109/ISCAS.2010.5537549

Sammlungen

Informatik und Informationswissenschaft

Publikationstyp

Beitrag zu einem Konferenzband

Publikationsstatus

Published

Erschienen in

Proceedings of 2010 IEEE International Symposium on Circuits and Systems : Paris, France : 30 May - 2 June 2010. Piscataway, NJ: IEEE, 2010, pp. 541-544. ISBN 978-1-4244-5308-5. Available under: doi: 10.1109/ISCAS.2010.5537549

Zusammenfassung

Calibration or model parameter estimation from measured data is an ubiquitous problem in engineering. In systems biology this problem turns out to be particularly challenging due to very short data-records, low signal-to-noise ratio of data acquisition, large intrinsic process noise and limited measurement access to only a few, of sometimes several hundreds, state variables. We review state-of-the-art model calibration techniques and also discuss their relation to the general reverse-engineering problem in systems biology. For biomolecular circuits involving low-copy-number molecules we adopt a Markov process setup and discuss a calibration approach based on suitable metrics between probability measures and propose the metrics computation for the multivariate case. In particular, we use Kantorovich's distance and devise an algorithm, for the case when FACS (fluorescence-activated cell sorting) measurements are given. We discuss a case study involving FACS data for the high-osmolarity glycerol (HOG) pathway in budding yeast.

Fachgebiet (DDC)

004 Informatik

Konferenz

2010 IEEE International Symposium on Circuits and Systems - ISCAS 2010, 30. Mai 2010 - 2. Juni 2010, Paris, France

Zitieren

ISO 690

KOEPPL, Heinz, Gianluca SETTI, Serge PELET, Mauro MANGIA, Tatjana PETROV, Matthias PETER, 2010. Probability metrics to calibrate stochastic chemical kinetics. 2010 IEEE International Symposium on Circuits and Systems - ISCAS 2010. Paris, France, 30. Mai 2010 - 2. Juni 2010. In: Proceedings of 2010 IEEE International Symposium on Circuits and Systems : Paris, France : 30 May - 2 June 2010. Piscataway, NJ: IEEE, 2010, pp. 541-544. ISBN 978-1-4244-5308-5. Available under: doi: 10.1109/ISCAS.2010.5537549

BibTex

@inproceedings{Koeppl2010Proba-42221,
  year={2010},
  doi={10.1109/ISCAS.2010.5537549},
  title={Probability metrics to calibrate stochastic chemical kinetics},
  isbn={978-1-4244-5308-5},
  publisher={IEEE},
  address={Piscataway, NJ},
  booktitle={Proceedings of 2010 IEEE International Symposium on Circuits and Systems : Paris, France : 30 May - 2 June 2010},
  pages={541--544},
  author={Koeppl, Heinz and Setti, Gianluca and Pelet, Serge and Mangia, Mauro and Petrov, Tatjana and Peter, Matthias}
}

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