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Publications

see also:

Journal papers and preprints

  1. A Freni-Sterrantino, TPP, G Ceely, M Glickman, C Holmes (2024). Assessments and developments in constructing a National Health Index for policy making in the United Kingdom. Journal of the Royal Statistical Society Series A: Statistics in Society, qnae060 DOI / PDF / arXiv / Github

  2. TPP, DJ Warne, & RE Baker (2024). Efficient multifidelity likelihood-free Bayesian inference with adaptive computational resource allocation. Journal of Computational Physics, 496:112577. DOI / PDF / arXiv / Github

  3. DJ Warne, TPP, RE Baker, & MJ Simpson (2022). Multifidelity multilevel Monte Carlo to accelerate approximate Bayesian parameter inference for partially observed stochastic processes. Journal of Computational Physics, 469:111534. DOI / PDF / arXiv / Github

  4. TPP, K Zhu, M Zhao, & RE Baker (2021). Quantifying the impact of electric fields on single-cell motility. Biophysical Journal, 120(16):3363-3373. DOI / PDF / bioRxiv / Data (Zenodo) / Github

  5. TPP & RE Baker (2021). Multifidelity approximate Bayesian computation with sequential Monte Carlo parameter sampling. SIAM/ASA Journal of Uncertainty Quantification, 9(2):788–817. DOI / PDF / Github

  6. TPP & RE Baker (2020). Multifidelity approximate Bayesian computation. SIAM/ASA Journal of Uncertainty Quantification, 8(1):114–138. DOI / PDF / Github

  7. T Folliard, B Mertins, H Steel, TPP, T Newport, CW Jones, G Wadhams, T Bayer, JP Armitage, A Papachristodoulou, & LJ Rothschild (2017). Ribo-attenuators: novel elements for reliable and modular riboswitch engineering. Nature Scientific Reports, 7(1):4599. DOI / PDF

  8. T Folliard, H Steel, TPP, G Wadhams, LJ Rothschild, & A Papachristodoulou (2017). A synthetic recombinase-based feedback loop results in robust expression. ACS Synthetic Biology, 6(9):1663–1671. DOI / PDF

  9. TPP & A Papachristodoulou (2015). Designing conservation relations in layered synthetic biomolecular networks. IEEE Transactions on Biomedical Circuits and Systems (Synthetic Biology Special Edition), 9(4):572–580. DOI / PDF

  10. TPP, M Lang, & A Papachristodoulou (2015). Quantification of interactions between dynamic cellular network functionalities by cascaded layering. PLoS Computational Biology, 11(5):e1004235. DOI / PDF

  11. TPP & A Papachristodoulou (2014). Layered decomposition for the model order reduction of timescale separated biochemical reaction networks. Journal of Theoretical Biology, 356:113–122. DOI / PDF

  12. TPP & A Papachristodoulou (2012). Guaranteed error bounds for structured complexity reduction of biochemical networks. Journal of Theoretical Biology, 304:172–182. DOI / PDF

Peer-reviewed conference proceedings

  1. TPP & A Papachristodoulou (2016). Multi-scale design in layered synthetic biological systems. Proceedings of the European Control Conference (ECC), Aalborg, Denmark, pp.1838-1843, June 2016. DOI / PDF

  2. TPP & A Gyorgy (2015). Bounding the effect of retroactivity in the presence of parameter uncertainty. Proceedings of the American Control Conference (ACC), Chicago IL, pp.3120–3125, July 2015. DOI / PDF

  3. TPP & A Papachristodoulou (2014). Structured storage functions for cascaded systems. Proceedings of the IEEE Conference on Decision and Control (CDC), Los Angeles CA, pp.5488–5493, December 2014. DOI / PDF

  4. TPP & A Papachristodoulou (2014). Synthetic Biology: A Control Engineering Perspective. Proceedings of the European Control Conference (ECC), Strasbourg, France, pp.1182–1186, June 2014. DOI / PDF

  5. TPP & A Papachristodoulou (2014). Signal propagation across layered biochemical networks. Proceedings of the American Control Conference (ACC), Portland OR, pp.3399–3404, June 2014. DOI / PDF

  6. TPP & A Papachristodoulou (2013). Layering in networks: The case of biochemical systems. Proceedings of the American Control Conference (ACC), Washington D.C., pp.4544–4549, June 2013. DOI / PDF

Thesis

  1. TPP (2015). Large-Scale Layered Systems and Synthetic Biology: Model Reduction and Decomposition. DPhil Thesis, University of Oxford. Submitted: January 2015. Leave to Supplicate: June 2015. Oxford University Research Archive / PDF