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Construction of a genetic toggle switch in Escherichia coli

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  1. Nagarajan, Radhakrishnan, 2007. "Delay estimation in a two-node acyclic network," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 376(C), pages 725-737.
  2. Christoph Schmal & Peter Reimann & Dorothee Staiger, 2013. "A Circadian Clock-Regulated Toggle Switch Explains AtGRP7 and AtGRP8 Oscillations in Arabidopsis thaliana," PLOS Computational Biology, Public Library of Science, vol. 9(3), pages 1-16, March.
  3. T. Ochiai & J. C. Nacher, 2007. "Stochastic analysis of autoregulatory gene expression dynamics," Mathematical and Computer Modelling of Dynamical Systems, Taylor & Francis Journals, vol. 14(4), pages 377-388, November.
  4. Stefano Ciliberti & Olivier C Martin & Andreas Wagner, 2007. "Robustness Can Evolve Gradually in Complex Regulatory Gene Networks with Varying Topology," PLOS Computational Biology, Public Library of Science, vol. 3(2), pages 1-10, February.
  5. Takako Kaneko-Kawano & Fugo Takasu & Honda Naoki & Yuichi Sakumura & Shin Ishii & Takahiro Ueba & Akinori Eiyama & Aiko Okada & Yoji Kawano & Kenji Suzuki, 2012. "Dynamic Regulation of Myosin Light Chain Phosphorylation by Rho-kinase," PLOS ONE, Public Library of Science, vol. 7(6), pages 1-10, June.
  6. Luca Cardelli & Rosa D Hernansaiz-Ballesteros & Neil Dalchau & Attila Csikász-Nagy, 2017. "Efficient Switches in Biology and Computer Science," PLOS Computational Biology, Public Library of Science, vol. 13(1), pages 1-16, January.
  7. Liu, Xian & Wang, Jinzhi & Huang, Lin, 2007. "Global synchronization for a class of dynamical complex networks," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 386(1), pages 543-556.
  8. Tobias May & Lee Eccleston & Sabrina Herrmann & Hansjörg Hauser & Jorge Goncalves & Dagmar Wirth, 2008. "Bimodal and Hysteretic Expression in Mammalian Cells from a Synthetic Gene Circuit," PLOS ONE, Public Library of Science, vol. 3(6), pages 1-7, June.
  9. Oleg Kanakov & Roman Kotelnikov & Ahmed Alsaedi & Lev Tsimring & Ramón Huerta & Alexey Zaikin & Mikhail Ivanchenko, 2015. "Multi-Input Distributed Classifiers for Synthetic Genetic Circuits," PLOS ONE, Public Library of Science, vol. 10(5), pages 1-17, May.
  10. Xu, Yong & Zhu, Ya-nan & Shen, Jianwei & Su, Jianbin, 2014. "Switch dynamics for stochastic model of genetic toggle switch," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 416(C), pages 461-466.
  11. Shivang Hina-Nilesh Joshi & Chentao Yong & Andras Gyorgy, 2022. "Inducible plasmid copy number control for synthetic biology in commonly used E. coli strains," Nature Communications, Nature, vol. 13(1), pages 1-16, December.
  12. Vladimir Kazeev & Mustafa Khammash & Michael Nip & Christoph Schwab, 2014. "Direct Solution of the Chemical Master Equation Using Quantized Tensor Trains," PLOS Computational Biology, Public Library of Science, vol. 10(3), pages 1-19, March.
  13. Javier Macia & Romilde Manzoni & Núria Conde & Arturo Urrios & Eulàlia de Nadal & Ricard Solé & Francesc Posas, 2016. "Implementation of Complex Biological Logic Circuits Using Spatially Distributed Multicellular Consortia," PLOS Computational Biology, Public Library of Science, vol. 12(2), pages 1-24, February.
  14. Thomas B. Kepler & Timothy C. Elston, 2001. "Stochasticity in Transcriptional Regulation: Origins, Consequences and Mathematical Representations," Working Papers 01-06-033, Santa Fe Institute.
  15. Jamiree Harrison & Enoch Yeung, 2021. "Stability Analysis of Parameter Varying Genetic Toggle Switches Using Koopman Operators," Mathematics, MDPI, vol. 9(23), pages 1-25, December.
  16. Samanthe M Lyons & Wenlong Xu & June Medford & Ashok Prasad, 2014. "Loads Bias Genetic and Signaling Switches in Synthetic and Natural Systems," PLOS Computational Biology, Public Library of Science, vol. 10(3), pages 1-16, March.
  17. Lida Xu & Zhilin Qu, 2012. "Roles of Protein Ubiquitination and Degradation Kinetics in Biological Oscillations," PLOS ONE, Public Library of Science, vol. 7(4), pages 1-11, April.
  18. Vojislav Gligorovski & Ahmad Sadeghi & Sahand Jamal Rahi, 2023. "Multidimensional characterization of inducible promoters and a highly light-sensitive LOV-transcription factor," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
  19. Sara Hooshangi & William E Bentley, 2011. "LsrR Quorum Sensing “Switch” Is Revealed by a Bottom-Up Approach," PLOS Computational Biology, Public Library of Science, vol. 7(9), pages 1-11, September.
  20. Ankit Gupta & Corentin Briat & Mustafa Khammash, 2014. "A Scalable Computational Framework for Establishing Long-Term Behavior of Stochastic Reaction Networks," PLOS Computational Biology, Public Library of Science, vol. 10(6), pages 1-16, June.
  21. Graham Rockwell & Nicholas J Guido & George M Church, 2013. "Redirector: Designing Cell Factories by Reconstructing the Metabolic Objective," PLOS Computational Biology, Public Library of Science, vol. 9(1), pages 1-15, January.
  22. Jaroslav Albert & Marianne Rooman, 2012. "Design Principles of a Genetic Alarm Clock," PLOS ONE, Public Library of Science, vol. 7(11), pages 1-8, November.
  23. Alan Veliz-Cuba & Andrew J Hirning & Adam A Atanas & Faiza Hussain & Flavia Vancia & Krešimir Josić & Matthew R Bennett, 2015. "Sources of Variability in a Synthetic Gene Oscillator," PLOS Computational Biology, Public Library of Science, vol. 11(12), pages 1-23, December.
  24. Luis Mier-y-Terán-Romero & Mary Silber & Vassily Hatzimanikatis, 2010. "The Origins of Time-Delay in Template Biopolymerization Processes," PLOS Computational Biology, Public Library of Science, vol. 6(4), pages 1-15, April.
  25. Ioannis G Aviziotis & Michail E Kavousanakis & Andreas G Boudouvis, 2015. "Effect of Intrinsic Noise on the Phenotype of Cell Populations Featuring Solution Multiplicity: An Artificial lac Operon Network Paradigm," PLOS ONE, Public Library of Science, vol. 10(7), pages 1-27, July.
  26. Buzzard, Gregery T., 2012. "Global sensitivity analysis using sparse grid interpolation and polynomial chaos," Reliability Engineering and System Safety, Elsevier, vol. 107(C), pages 82-89.
  27. Avraham E Mayo & Yaakov Setty & Seagull Shavit & Alon Zaslaver & Uri Alon, 2006. "Plasticity of the cis-Regulatory Input Function of a Gene," PLOS Biology, Public Library of Science, vol. 4(4), pages 1-1, March.
  28. Niklas Korsbo & Henrik Jönsson, 2020. "It’s about time: Analysing simplifying assumptions for modelling multi-step pathways in systems biology," PLOS Computational Biology, Public Library of Science, vol. 16(6), pages 1-29, June.
  29. Duncan Ingram & Guy-Bart Stan, 2023. "Modelling genetic stability in engineered cell populations," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
  30. Patrick R. Conrad & Youssef M. Marzouk & Natesh S. Pillai & Aaron Smith, 2016. "Accelerating Asymptotically Exact MCMC for Computationally Intensive Models via Local Approximations," Journal of the American Statistical Association, Taylor & Francis Journals, vol. 111(516), pages 1591-1607, October.
  31. Zhou, Peipei & Cai, Shuiming & Liu, Zengrong & Chen, Luonan & Wang, Ruiqi, 2013. "Coupling switches and oscillators as a means to shape cellular signals in biomolecular systems," Chaos, Solitons & Fractals, Elsevier, vol. 50(C), pages 115-126.
  32. Bonassi Fernando V. & You Lingchong & West Mike, 2011. "Bayesian Learning from Marginal Data in Bionetwork Models," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 10(1), pages 1-27, October.
  33. Zachary R Fox & Brian Munsky, 2019. "The finite state projection based Fisher information matrix approach to estimate information and optimize single-cell experiments," PLOS Computational Biology, Public Library of Science, vol. 15(1), pages 1-23, January.
  34. Carl Song & Hilary Phenix & Vida Abedi & Matthew Scott & Brian P Ingalls & Mads Kærn & Theodore J Perkins, 2010. "Estimating the Stochastic Bifurcation Structure of Cellular Networks," PLOS Computational Biology, Public Library of Science, vol. 6(3), pages 1-11, March.
  35. Zhdanov, Vladimir P., 2011. "Periodic perturbation of the bistable kinetics of gene expression," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 390(1), pages 57-64.
  36. Evgeni V Nikolaev & Eduardo D Sontag, 2016. "Quorum-Sensing Synchronization of Synthetic Toggle Switches: A Design Based on Monotone Dynamical Systems Theory," PLOS Computational Biology, Public Library of Science, vol. 12(4), pages 1-33, April.
  37. Kudtarkar, Santosh Kumar & Dhadwal, Renu, 2023. "Noise induced bistability in a fluctuating environment," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 615(C).
  38. Lu, Wen & Zhang, Yuhao & Qian, Yu & Pandey, Vikas & Qu, Zhilin & Zhang, Zhaoyang, 2021. "Bursting and complex oscillatory patterns in a gene regulatory network model," Chaos, Solitons & Fractals, Elsevier, vol. 152(C).
  39. Andreas Petrides & Glenn Vinnicombe, 2018. "Enzyme sequestration by the substrate: An analysis in the deterministic and stochastic domains," PLOS Computational Biology, Public Library of Science, vol. 14(5), pages 1-23, May.
  40. Zomorrodi, Ali R. & Maranas, Costas D., 2014. "Coarse-grained optimization-driven design and piecewise linear modeling of synthetic genetic circuits," European Journal of Operational Research, Elsevier, vol. 237(2), pages 665-676.
  41. Tomas Tokar & Jozef Ulicny, 2013. "The Mathematical Model of the Bcl-2 Family Mediated MOMP Regulation Can Perform a Non-Trivial Pattern Recognition," PLOS ONE, Public Library of Science, vol. 8(12), pages 1-8, December.
  42. Wu, Juan & Xu, Yong & Ma, Shaojuan, 2019. "Realizing the transformation of logic gates in a genetic toggle system under Lévy noise," Chaos, Solitons & Fractals, Elsevier, vol. 119(C), pages 171-179.
  43. Keun-Young Kim & Jin Wang, 2007. "Potential Energy Landscape and Robustness of a Gene Regulatory Network: Toggle Switch," PLOS Computational Biology, Public Library of Science, vol. 3(3), pages 1-13, March.
  44. Liu, Xian & Wang, Jinzhi & Huang, Lin, 2007. "Stabilization of a class of dynamical complex networks based on decentralized control," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 383(2), pages 733-744.
  45. Luís António Menezes Carreira & Filipe Tostevin & Ulrich Gerland & Lotte Søgaard-Andersen, 2020. "Protein-protein interaction network controlling establishment and maintenance of switchable cell polarity," PLOS Genetics, Public Library of Science, vol. 16(6), pages 1-30, June.
  46. Chen, Aimin & Wang, Pei & Zhou, Tianshou & Tian, Tianhai, 2022. "Balance of positive and negative regulation for trade-off between efficiency and resilience of high-dimensional networks," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 603(C).
  47. Mark Hallen & Bochong Li & Yu Tanouchi & Cheemeng Tan & Mike West & Lingchong You, 2011. "Computation of Steady-State Probability Distributions in Stochastic Models of Cellular Networks," PLOS Computational Biology, Public Library of Science, vol. 7(10), pages 1-16, October.
  48. Duan, Dongli & Bai, Xue & Rong, Yisheng & Hou, Gege & Hang, Jiale, 2022. "Controlling of nonlinear dynamical networks based on decoupling and re-coupling method," Chaos, Solitons & Fractals, Elsevier, vol. 163(C).
  49. Betz, Ulrich A.K. & Arora, Loukik & Assal, Reem A. & Azevedo, Hatylas & Baldwin, Jeremy & Becker, Michael S. & Bostock, Stefan & Cheng, Vinton & Egle, Tobias & Ferrari, Nicola & Schneider-Futschik, El, 2023. "Game changers in science and technology - now and beyond," Technological Forecasting and Social Change, Elsevier, vol. 193(C).
  50. Singh, Vijai & Chaudhary, Dharmendra Kumar & Mani, Indra & Dhar, Pawan Kumar, 2016. "Recent advances and challenges of the use of cyanobacteria towards the production of biofuels," Renewable and Sustainable Energy Reviews, Elsevier, vol. 60(C), pages 1-10.
  51. Weiyue Ji & Handuo Shi & Haoqian Zhang & Rui Sun & Jingyi Xi & Dingqiao Wen & Jingchen Feng & Yiwei Chen & Xiao Qin & Yanrong Ma & Wenhan Luo & Linna Deng & Hanchi Lin & Ruofan Yu & Qi Ouyang, 2013. "A Formalized Design Process for Bacterial Consortia That Perform Logic Computing," PLOS ONE, Public Library of Science, vol. 8(2), pages 1-9, February.
  52. Marc Weber & Javier Buceta, 2013. "Stochastic Stabilization of Phenotypic States: The Genetic Bistable Switch as a Case Study," PLOS ONE, Public Library of Science, vol. 8(9), pages 1-8, September.
  53. Das, Saureesh, 2022. "Recurrence quantification and bifurcation analysis of electrical activity in resistive/memristive synapse coupled Fitzhugh–Nagumo type neurons," Chaos, Solitons & Fractals, Elsevier, vol. 165(P1).
  54. Tatiana Baumuratova & Simona Dobre & Thierry Bastogne & Thomas Sauter, 2013. "Switch of Sensitivity Dynamics Revealed with DyGloSA Toolbox for Dynamical Global Sensitivity Analysis as an Early Warning for System's Critical Transition," PLOS ONE, Public Library of Science, vol. 8(12), pages 1-12, December.
  55. Lucia Marucci & David A W Barton & Irene Cantone & Maria Aurelia Ricci & Maria Pia Cosma & Stefania Santini & Diego di Bernardo & Mario di Bernardo, 2009. "How to Turn a Genetic Circuit into a Synthetic Tunable Oscillator, or a Bistable Switch," PLOS ONE, Public Library of Science, vol. 4(12), pages 1-10, December.
  56. Linlin Tang & Zhijin Tian & Jin Cheng & Yijing Zhang & Yongxiu Song & Yan Liu & Jinghao Wang & Pengfei Zhang & Yonggang Ke & Friedrich C. Simmel & Jie Song, 2023. "Circular single-stranded DNA as switchable vector for gene expression in mammalian cells," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
  57. Kazunari Mouri & Jose C Nacher & Tatsuya Akutsu, 2009. "A Mathematical Model for the Detection Mechanism of DNA Double-Strand Breaks Depending on Autophosphorylation of ATM," PLOS ONE, Public Library of Science, vol. 4(4), pages 1-14, April.
  58. Brian Drawert & Andreas Hellander & Ben Bales & Debjani Banerjee & Giovanni Bellesia & Bernie J Daigle Jr. & Geoffrey Douglas & Mengyuan Gu & Anand Gupta & Stefan Hellander & Chris Horuk & Dibyendu Na, 2016. "Stochastic Simulation Service: Bridging the Gap between the Computational Expert and the Biologist," PLOS Computational Biology, Public Library of Science, vol. 12(12), pages 1-15, December.
  59. Miles Miller & Marc Hafner & Eduardo Sontag & Noah Davidsohn & Sairam Subramanian & Priscilla E M Purnick & Douglas Lauffenburger & Ron Weiss, 2012. "Modular Design of Artificial Tissue Homeostasis: Robust Control through Synthetic Cellular Heterogeneity," PLOS Computational Biology, Public Library of Science, vol. 8(7), pages 1-18, July.
  60. Xu, Yong & Wu, Juan & Du, Lin & Yang, Hui, 2016. "Stochastic resonance in a genetic toggle model with harmonic excitation and Lévy noise," Chaos, Solitons & Fractals, Elsevier, vol. 92(C), pages 91-100.
  61. Nasimul Noman & Taku Monjo & Pablo Moscato & Hitoshi Iba, 2015. "Evolving Robust Gene Regulatory Networks," PLOS ONE, Public Library of Science, vol. 10(1), pages 1-21, January.
  62. Alicia Sanchez-Gorostiaga & Djordje Bajić & Melisa L Osborne & Juan F Poyatos & Alvaro Sanchez, 2019. "High-order interactions distort the functional landscape of microbial consortia," PLOS Biology, Public Library of Science, vol. 17(12), pages 1-34, December.
  63. Luna Rizik & Loai Danial & Mouna Habib & Ron Weiss & Ramez Daniel, 2022. "Synthetic neuromorphic computing in living cells," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
  64. Tai-Yin Chiu & Hui-Ju K Chiang & Ruei-Yang Huang & Jie-Hong R Jiang & François Fages, 2015. "Synthesizing Configurable Biochemical Implementation of Linear Systems from Their Transfer Function Specifications," PLOS ONE, Public Library of Science, vol. 10(9), pages 1-27, September.
  65. Shintaro Nagata & Macoto Kikuchi, 2020. "Emergence of cooperative bistability and robustness of gene regulatory networks," PLOS Computational Biology, Public Library of Science, vol. 16(6), pages 1-24, June.
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