2018

Darlington, Alexander P. S., Kim, Juhyun, Jiménez, José I. and Bates, Declan (2018) Dynamic allocation of orthogonal ribosomes facilitates uncoupling of co-expressed genes. Nature Communications, 9 (1). 695. doi:10.1038/s41467-018-02898-6

Foo, Mathias, Kim, Jongrae and Bates, Declan (2018) Modelling and control of gene regulatory networks for perturbation mitigation. IEEE/ACM Transactions on Computational Biology and Bioinformatics . doi:10.1109/TCBB.2017.2771775 (In Press)

2017

Bowyer, Jack E., LC. de los Santos, Emmanuel, Styles, Kathryn, Fullwood, Alex, Corre, Christophe and Bates, Declan (2017) Modeling the architecture of the regulatory system controlling methylenomycin production in Streptomyces coelicolor. Journal of Biological Engineering, 11 (1). 30. doi:10.1186/s13036-017-0071-6

Alawo, Deborah O. A., Tahir, Tariq A., Fischer, Marlies, Bates, Declan, Amirova, Svetlana R. and Brindle, Nicholas P. J. (2017) Regulation of angiopoietin signalling by soluble Tie2 ectodomain and engineered ligand trap. Scientific Reports, 7 (1). 3658. doi:10.1038/s41598-017-03981-6

Bowyer, Jack E., Hsiao, Victoria, Wong, Wilson W. and Bates, Declan (2017) Mechanistic modelling of a recombinase-based two-input temporal logic gate. Engineering Biology, 1 (1). pp. 40-50. doi:10.1049/enb.2017.0006

Das, Anup, Haque, Mainul, Chikhani, Marc, Cole, Oana, Wang, Wenfei, Hardman, Jonathan G. and Bates, Declan (2017) Hemodynamic effects of lung recruitment maneuvers in acute respiratory distress syndrome. BMC Pulmonary Medicine, 17 . 34. doi:10.1186/s12890-017-0369-7

Foo, Mathias, Kim, Jongrae, Sawlekar, Rucha and Bates, Declan (2017) Design of an embedded inverse-feedforward biomolecular tracking controller for enzymatic reaction processes. Computers & Chemical Engineering . doi:10.1016/j.compchemeng.2017.01.027 (In Press)

Du Lac, Melchior, Scarpelli, Andrew H., Younger, Andrew K. D., Bates, Declan and Leonard, Joshua N. (2017) Predicting the dynamics and heterogeneity of genomic DNA content within bacterial populations across variable growth regimes. ACS Synthetic Biology, 6 (7). pp. 1131-1139. doi:10.1021/acssynbio.5b00217

2016

Foo, Mathias, Jongrae, Kim, Jongmin, Kim and Bates, Declan (2016) Proportional-integral degradation (PI-Deg) control allows accurate tracking of biomolecular concentrations with fewer chemical reactions. IEEE Life Sciences Letters . doi:10.1109/LLS.2016.2644652

Chikhani, M., Das, A., Haque, M., Wang, W., Bates, Declan and Hardman, J. G. (2016) High PEEP in ARDS : quantitative evaluation between improved oxygenation and decreased oxygen delivery. British Journal of Anaesthesia, 117 (5). pp. 650-658. doi:10.1093/bja/aew314 (In Press)

Foo, Mathias, Sawlekar, Rucha, Kulkarni, Vishwesh V. and Bates, Declan (2016) Biologically inspired design of feedback control systems implemented using DNA strand displacement reactions. In: 38th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), Orlando, Florida, 16-20 Aug 2016. Published in: 2016 IEEE 38th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC) ISSN 1558-4615.

Foo, Mathias, Sawlekar, Rucha and Bates, Declan (2016) Exploiting the dynamic properties of covalent modification cycle for the design of synthetic analog biomolecular circuitry. Journal of Biological Engineering, 10 (15).

Montefusco, Francesco, Akman, Ozgur E., Soyer, Orkun S. and Bates, Declan (2016) Ultrasensitive negative feedback control : a natural approach for the design of synthetic controllers. PLoS One, 11 (8). e0161605. doi:10.1371/journal.pone.0161605

Foo, Mathias, Sawlekar, Rucha, Kim, J., Bates, Declan, Stan, Guy-Bart and Kulkarni, Vishwesh V. (2016) Biomolecular implementation of nonlinear system theoretic operators. In: European Control Conference 2016, Aalborg, Denmark, 29 Jun-1 Jul 2016. Published in: Proceedings of the 15th annual European Control Conference (In Press)

Bowyer, Jack E., Zhao, Jia, Subsoontorn, Pakpoom, Wong, Wilson, Rosser, Susan and Bates, Declan (2016) Mechanistic modeling of a rewritable recombinase addressable data module. IEEE Transactions on Biomedical Circuits and Systems, 10 (6). pp. 1161-1170. doi:10.1109/TBCAS.2016.2526668

Sawlekar, Rucha, Montefusco, Francesco, Kulkarni, Vishwesh V. and Bates, Declan (2016) Biomolecular implementation of a quasi sliding mode feedback controller based on DNA strand displacement reactions. IEEE Transactions on NanoBioscience, 15 (5). pp. 443-454. doi:DOI: 10.1109/TNB.2016.2560764

Steinacher, Arno, Bates, Declan, Akman, Ozgur E. and Soyer, Orkun S. (2016) Nonlinear dynamics in gene regulation promote robustness and evolvability of gene expression levels. PLoS One, 11 (4). e0153295. doi:10.1371/journal.pone.0153295

Sawlekar, Rucha, Montefusco, Francesco, Kulkarni, Vishwesh V. and Bates, Declan (2016) Implementing nonlinear feedback controllers using DNA strand displacement reactions. IEEE Transactions on NanoBioscience . doi:10.1109/TNB.2016.2560764 (In Press)

2015

Sawlekar, Rucha, Montefusco, Francesco, Kulkarni, Vishwesh V. and Bates, Declan (2015) Biomolecular implementation of a quasi sliding mode feedback controller based on DNA strand displacement reactions. In: 37th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), Milan, Italy, August 25-29, 2015. Published in: Proceedings of the 37th Annual International Conference of the IEEE Engineering in Medicine and Biology Society pp. 949-952. ISSN DOI: 10.1109/EMBC.2015.7318520.

Das, Anup, Cole, Oana, Chikhani, Marc, Wang, Wenfei, Ali, Tayyba, Haque, Mainul, Bates, Declan and Hardman, Jonathan G. (2015) Evaluation of lung recruitment maneuvers in acute respiratory distress syndrome using computer simulation. Critical Care, Volume 19 (Number 1). Article number 8. doi:10.1186/s13054-014-0723-6