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• Article

  A Framework for Engineering Stress Resilient Plants Using Genetic Feedback Control and Regulatory Network Rewiring

  Foo, M., Gherman, I., Zhang, P., Bates, D. & Denby, K., 15 Jun 2018, In: ACS Synthetic Biology. 7, 6, p. 1553-1564 12 p., 7.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Pathogens
  • Feedback control
  • Synthetic biology
  • Synthetic Biology
  • Arabidopsis
  3 Citations (Scopus)

  13 Downloads (Pure)

• Computationally Efficient Modelling of Stochastic Spatio-Temporal Dynamics in Biomolecular Networks

  Kim, J., Foo, M. & Bates, D. G., 22 Feb 2018, In: Scientific Reports. 8, 1, 1 p., 3498.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Molecules
  • Epidermal Growth Factor
  • Epithelial Cells
  • Molecular interactions
  • Computational efficiency
  1 Citation (Scopus)

  20 Downloads (Pure)

• Design of an embedded inverse-feedforward biomolecular trackingcontroller for enzymatic reaction processes

  Foo, M., Kim, J., Sawlekar, R. & Bates, D., 6 Apr 2017, In: Computers and Chemical Engineering. 99, p. 145-157 13 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Controllers
  • Chemical reactions
  • Network theory (graphs)
  • Synthetic biology
  • Bioengineering
  6 Citations (Scopus)

  13 Downloads (Pure)

• Exploiting the dynamic properties of covalent modification cycle for the design of synthetic analog biomolecular circuitry

  Foo, M., Sawlekar, R. & Bates, D. G., 14 Nov 2016, In: Journal of Biological Engineering. 10, 15, 17 p., 10.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Synthetic Biology
  • Chemical reactions
  • DNA
  • Cell signaling
  • Synthetic biology
  4 Citations (Scopus)

  11 Downloads (Pure)

• Kernel Architecture of the Genetic Circuitry of the Arabidopsis Circadian System

  Foo, M., Somers, D. E. & Kim, P. J., 1 Feb 2016, In: PLoS Computational Biology. 12, 2, 21 p., e1004748.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Arabidopsis
  • Architecture
  • circadian rhythm
  • Clocks
  • Circadian Clocks
  12 Citations (Scopus)

  10 Downloads (Pure)

• Modelling and Control of Gene Regulatory Networks for Perturbation Mitigation

  Foo, M., Kim, J. & Bates, D., 29 Mar 2019, In: IEEE/ACM Transactions on Computational Biology and Bioinformatics. 16, 2, p. 583-595 13 p., 8254368.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Gene Regulatory Network
  • Gene Regulatory Networks
  • S-system
  • Genes
  • Perturbation
  3 Citations (Scopus)

  42 Downloads (Pure)

• Nanomechanical Contribution of Collagen and von Willebrand Factor A in Marine Underwater Adhesion and Its Implication for Collagen Manipulation

  Yoo, H. Y., Huang, J., Li, L., Foo, M., Zeng, H. & Hwang, D. S., 14 Mar 2016, In: Biomacromolecules. 17, 3, p. 946-953 8 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Collagen
  • von Willebrand Factor
  • Adhesion
  • Proteins
  • Molecular interactions
  9 Citations (Scopus)

  25 Downloads (Pure)

• PID and state feedback controllers using DNA strand displacement reactions

  Paulino, N., Foo, M., Kim, J. & Bates, D., 1 Oct 2019, In: IEEE Control Systems Letters. 3, 4, p. 805-810 6 p., 8721529.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • State Feedback
  • DNA
  • Nucleic acids
  • State feedback
  • Controller
  5 Citations (Scopus)

  93 Downloads (Pure)

• Proportional-integral degradation control allows accurate tracking of biomolecular concentrations with fewer chemical reactions

  Foo, M., Kim, J., Kim, J. & Bates, D. G., 23 Dec 2016, In: IEEE Life Sciences Letters. 2, 4, p. 55-58 4 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Chemical reactions
  • Degradation
  • Terminology
  • Networks (circuits)
  • Tuning
  10 Downloads (Pure)

• Recombinant mussel proximal thread matrix protein promotes osteoblast cell adhesion and proliferation

  Yoo, H. Y., Song, Y. H., Foo, M., Seo, E., Hwang, D. S. & Seo, J. H., 16 Feb 2016, In: BMC Biotechnology. 16, 9 p., 16.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Bivalvia
  • Osteoblasts
  • Cell Adhesion
  • Collagen
  • Cell Proliferation
  8 Citations (Scopus)

  15 Downloads (Pure)

• Robustness analysis of a nucleic acid controller for a dynamic biomolecular process using the structured singular value

  Paulino, N., Foo, M., Kim, J. & Bates, D., Jun 2019, In: Journal of Process Control. 78, p. 34-44 11 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Structured Singular Value
  • Nucleic acids
  • Robustness Analysis
  • Dynamic Process
  • Controller
  2 Citations (Scopus)

  5 Downloads (Pure)

• Sugary interfaces mitigate contact damage where stiff meets soft

  Yoo, H. Y., Iordachescu, M., Huang, J., Hennebert, E., Kim, S., Rho, S., Foo, M., Flammang, P., Zeng, H., Hwang, D., Waite, J. H. & Hwang, D. S., 16 Jun 2016, In: Nature Communications. 7, 8 p., 11923 .

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • dopa
  • Dihydroxyphenylalanine
  • Licensure
  • Bionics
  • Tissue
  15 Citations (Scopus)

  20 Downloads (Pure)

• System identification and control of the broken river

  Foo, M., Ooi, S. K. & Weyer, E., Mar 2014, In: IEEE Transactions on Control Systems Technology. 22, 2, p. 618-634 17 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Rivers
  • Identification (control systems)
  • Control systems
  • Controllers
  • Water resources
  9 Citations (Scopus)

  26 Downloads (Pure)

• System identification of the Arabidopsis plant circadian system

  Foo, M., Somers, D. E. & Kim, P-J., 7 Feb 2015, In: Journal of the Korean Physical Society. 66, 4, p. 700-712 13 p.

  Research output: Contribution to journal › Article › peer-review

  • system identification
  • genes
  • proteins
  • organisms
  • rhythm
  2 Citations (Scopus)

• Uncovering the nutritional landscape of food

  Kim, S., Sung, J., Foo, M., Jin, Y. S. & Kim, P. J., 13 Mar 2015, In: PLoS ONE. 10, 3, 18 p., e0127128.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Nutrients
  • Food
  • Nutritional Requirements
  • Raw Foods
  • alpha-Linolenic Acid
  11 Citations (Scopus)

  15 Downloads (Pure)

• Waveforms of molecular oscillations reveal circadian timekeeping mechanisms

  Jo, H-H., Kim, Y. J., Kim, J. K., Foo, M., Somers, D. E. & Kim, P-J., 26 Nov 2018, In: Communications Biology. 1, 207, 11 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • oscillation
  • Clocks
  • Circadian Clocks
  • circadian clocks
  • Seedlings
  2 Citations (Scopus)

  13 Downloads (Pure)
• Chapter

  Modeling and control design of plant circadian system for flowering time in Arabidopsis

  Foo, M. & Kim, P. J., 9 Dec 2014, 2014 IEEE Conference on Control Applications, CCA 2014. Institute of Electrical and Electronics Engineers Inc., p. 1687-1692 6 p.

  Research output: Chapter in Book/Report/Conference proceeding › Chapter › peer-review

  • Identification (control systems)
  • Crops
  • Controllers
  • Decision support systems
  • Productivity

• Modelling of Rivers for Control Design

  Foo, M., Ooi, S. K. & Weyer, E., 1 Jun 2012, System Identification, Environmental Modelling, and Control System Design. Wang, L. & Garnier, H. (eds.). Springer-Verlag London Ltd, p. 423-447 25 p. (System Identification, Environmental Modelling, and Control System Design; vol. 9780857299741).

  Research output: Chapter in Book/Report/Conference proceeding › Chapter › peer-review

  • river
  • modeling
  • decision support system
  • river system
  • water
  7 Citations (Scopus)
• Conference proceeding

  Biologically inspired design of feedback control systems implemented using DNA strand displacement reactions

  Foo, M., Sawlekar, R., Kulkarni, V. & Bates, D., 16 Aug 2016, IEEE International Conference of Engineering in Medicine and Biology Society. IEEE, p. 1455-1458 4 p.

  Research output: Chapter in Book/Report/Conference proceeding › Conference proceeding › peer-review

  Open Access

  File

  • DNA
  • Feedback control
  • Chemical reactions
  • Control systems
  • Controllers
  10 Downloads (Pure)

• Biomolecular implementation of nonlinear system theoretic operators

  Foo, M., Sawlekar, R., Kim, J., Bates, D. G., Stan, G. B. & Kulkarni, V., 6 Jan 2017, 2016 European Control Conference, ECC 2016. Institute of Electrical and Electronics Engineers Inc., p. 1824-1831 8 p. (2016 European Control Conference, ECC 2016).

  Research output: Chapter in Book/Report/Conference proceeding › Conference proceeding › peer-review

  Open Access

  File

  • Chemical reactions
  • Nonlinear systems
  • Synthetic biology
  • Drug delivery
  • Catalysis
  2 Citations (Scopus)

  28 Downloads (Pure)

• Control strategies for mitigating the effect for external perturbations on gene regulatory networks

  Foo, M., Gherman, I., Denby, K. & Bates, D., 9 Jul 2017, IFAC World Congress. 1 ed. IFAC-Papers OnLine, Vol. 50. p. 12647-12652 6 p.

  Research output: Chapter in Book/Report/Conference proceeding › Conference proceeding › peer-review

  Open Access

  File

  • Synthetic biology
  • Biological systems
  • Genes
  • Feedback control
  • Pathogens
  1 Citation (Scopus)

  81 Downloads (Pure)

• Nonlinearity tests of the Saint Venant equations

  Foo, M. & Weyer, E., 10 Mar 2014, Proceedings of the IEEE Conference on Decision and Control. Institute of Electrical and Electronics Engineers Inc., p. 4925-4930 6 p. (Proceedings of the IEEE Conference on Decision and Control).

  Research output: Chapter in Book/Report/Conference proceeding › Conference proceeding › peer-review

  • Water
  • Partial differential equations

• Robustness analysis of DNA-based biomolecular feedback controllers to parametric and time delay uncertainties

  Sawlekar, R., Foo, M. & Bates, D. G., 25 Jan 2017, Proceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016. Institute of Electrical and Electronics Engineers Inc., p. 548-551 4 p. (Proceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016).

  Research output: Chapter in Book/Report/Conference proceeding › Conference proceeding › peer-review

  Open Access

  File

  • Robustness (control systems)
  • DNA
  • Time delay
  • Uncertainty
  • Feedback
  28 Downloads (Pure)

• System identification of gene regulatory networks for perturbation mitigation via feedback control

  Foo, M., Bates, D. & Kim, J., 16 May 2017, IEEE International Conference on Networking, Sensing and Control. IEEE, p. 216-221 6 p.

  Research output: Chapter in Book/Report/Conference proceeding › Conference proceeding › peer-review

  Open Access

  File

  • Genes
  • Feedback control
  • Identification (control systems)
  • Controllers
  • Transfer functions
  2 Citations (Scopus)

  13 Downloads (Pure)

• Uncertainty modelling and stability robustness analysis of nucleic acid-based feedback control systems

  Paulino, N., Foo, M., Kim, J. & Bates, D., 17 Dec 2018, IEEE Conference on Decision and Control. IEEE, p. 1077-1082 6 p. (Proceedings of the IEEE Conference on Decision & Control / IEEE Control Systems Society. IEEE Conference on Decision & Control).

  Research output: Chapter in Book/Report/Conference proceeding › Conference proceeding › peer-review

  Open Access

  File

  • Nucleic acids
  • Robustness (control systems)
  • Feedback control
  • Uncertainty
  • Control systems
  1 Citation (Scopus)

  9 Downloads (Pure)