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Functional roles for noise in genetic circuits

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Cited by:

  1. Mohammad Soltani & Cesar A Vargas-Garcia & Duarte Antunes & Abhyudai Singh, 2016. "Intercellular Variability in Protein Levels from Stochastic Expression and Noisy Cell Cycle Processes," PLOS Computational Biology, Public Library of Science, vol. 12(8), pages 1-23, August.
  2. David Frigola & Laura Casanellas & José M Sancho & Marta Ibañes, 2012. "Asymmetric Stochastic Switching Driven by Intrinsic Molecular Noise," PLOS ONE, Public Library of Science, vol. 7(2), pages 1-7, February.
  3. Clive G Bowsher & Margaritis Voliotis & Peter S Swain, 2013. "The Fidelity of Dynamic Signaling by Noisy Biomolecular Networks," PLOS Computational Biology, Public Library of Science, vol. 9(3), pages 1-9, March.
  4. Margaritis Voliotis & Philipp Thomas & Ramon Grima & Clive G Bowsher, 2016. "Stochastic Simulation of Biomolecular Networks in Dynamic Environments," PLOS Computational Biology, Public Library of Science, vol. 12(6), pages 1-18, June.
  5. Abhyudai Singh & Mohammad Soltani, 2013. "Quantifying Intrinsic and Extrinsic Variability in Stochastic Gene Expression Models," PLOS ONE, Public Library of Science, vol. 8(12), pages 1-12, December.
  6. Vera Bettenworth & Simon Vliet & Bartosz Turkowyd & Annika Bamberger & Heiko Wendt & Matthew McIntosh & Wieland Steinchen & Ulrike Endesfelder & Anke Becker, 2022. "Frequency modulation of a bacterial quorum sensing response," Nature Communications, Nature, vol. 13(1), pages 1-12, December.
  7. Gabriele Micali & Gerardo Aquino & David M Richards & Robert G Endres, 2015. "Accurate Encoding and Decoding by Single Cells: Amplitude Versus Frequency Modulation," PLOS Computational Biology, Public Library of Science, vol. 11(6), pages 1-21, June.
  8. Jessica A Lee & Siavash Riazi & Shahla Nemati & Jannell V Bazurto & Andreas E Vasdekis & Benjamin J Ridenhour & Christopher H Remien & Christopher J Marx, 2019. "Microbial phenotypic heterogeneity in response to a metabolic toxin: Continuous, dynamically shifting distribution of formaldehyde tolerance in Methylobacterium extorquens populations," PLOS Genetics, Public Library of Science, vol. 15(11), pages 1-38, November.
  9. Chen, Aimin & Tian, Tianhai & Chen, Yiren & Zhou, Tianshou, 2022. "Stochastic analysis of a complex gene-expression model," Chaos, Solitons & Fractals, Elsevier, vol. 160(C).
  10. Angélique Richard & Loïs Boullu & Ulysse Herbach & Arnaud Bonnafoux & Valérie Morin & Elodie Vallin & Anissa Guillemin & Nan Papili Gao & Rudiyanto Gunawan & Jérémie Cosette & Ophélie Arnaud & Jean-Ja, 2016. "Single-Cell-Based Analysis Highlights a Surge in Cell-to-Cell Molecular Variability Preceding Irreversible Commitment in a Differentiation Process," PLOS Biology, Public Library of Science, vol. 14(12), pages 1-35, December.
  11. Kazunari Iwamoto & Yuki Shindo & Koichi Takahashi, 2016. "Modeling Cellular Noise Underlying Heterogeneous Cell Responses in the Epidermal Growth Factor Signaling Pathway," PLOS Computational Biology, Public Library of Science, vol. 12(11), pages 1-18, November.
  12. Laura Corrales-Guerrero & Asaf Tal & Rinat Arbel-Goren & Vicente Mariscal & Enrique Flores & Antonia Herrero & Joel Stavans, 2015. "Spatial Fluctuations in Expression of the Heterocyst Differentiation Regulatory Gene hetR in Anabaena Filaments," PLOS Genetics, Public Library of Science, vol. 11(4), pages 1-21, April.
  13. Leighton T Izu & Tamás Bányász & Ye Chen-Izu, 2015. "Optimizing Population Variability to Maximize Benefit," PLOS ONE, Public Library of Science, vol. 10(12), pages 1-17, December.
  14. Singh, Abhyudai & Vahdat, Zahra & Xu, Zikai, 2019. "Time-triggered stochastic hybrid systems with two timer-dependent resets," OSF Preprints u8fzg, Center for Open Science.
  15. Niraj Kumar & Abhyudai Singh & Rahul V Kulkarni, 2015. "Transcriptional Bursting in Gene Expression: Analytical Results for General Stochastic Models," PLOS Computational Biology, Public Library of Science, vol. 11(10), pages 1-22, October.
  16. Atefeh Kazeroonian & Fabian Fröhlich & Andreas Raue & Fabian J Theis & Jan Hasenauer, 2016. "CERENA: ChEmical REaction Network Analyzer—A Toolbox for the Simulation and Analysis of Stochastic Chemical Kinetics," PLOS ONE, Public Library of Science, vol. 11(1), pages 1-15, January.
  17. Sarah Anhala Cepeda-Humerez & Jakob Ruess & Gašper Tkačik, 2019. "Estimating information in time-varying signals," PLOS Computational Biology, Public Library of Science, vol. 15(9), pages 1-33, September.
  18. Máté, Gabriell & Néda, Zoltán, 2016. "The advantage of inhomogeneity — Lessons from a noise driven linearized dynamical system," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 445(C), pages 310-317.
  19. Ming Ni & Antoine L Decrulle & Fanette Fontaine & Alice Demarez & Francois Taddei & Ariel B Lindner, 2012. "Pre-Disposition and Epigenetics Govern Variation in Bacterial Survival upon Stress," PLOS Genetics, Public Library of Science, vol. 8(12), pages 1-11, December.
  20. Joby John & Jonathan B Dingwell & Joseph P Cusumano, 2016. "Error Correction and the Structure of Inter-Trial Fluctuations in a Redundant Movement Task," PLOS Computational Biology, Public Library of Science, vol. 12(9), pages 1-30, September.
  21. Lee, Julian, 2023. "Poisson distributions in stochastic dynamics of gene expression: What events do they count?," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 630(C).
  22. Martiny, Emil S. & Jensen, Mogens H. & Heltberg, Mathias S., 2022. "Detecting limit cycles in stochastic time series," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 605(C).
  23. Hao Ge & Pingping Wu & Hong Qian & Xiaoliang Sunney Xie, 2018. "Relatively slow stochastic gene-state switching in the presence of positive feedback significantly broadens the region of bimodality through stabilizing the uninduced phenotypic state," PLOS Computational Biology, Public Library of Science, vol. 14(3), pages 1-24, March.
  24. Lucy Ham & Megan A. Coomer & Kaan Öcal & Ramon Grima & Michael P. H. Stumpf, 2024. "A stochastic vs deterministic perspective on the timing of cellular events," Nature Communications, Nature, vol. 15(1), pages 1-10, December.
  25. Jan Hasenauer & Christine Hasenauer & Tim Hucho & Fabian J Theis, 2014. "ODE Constrained Mixture Modelling: A Method for Unraveling Subpopulation Structures and Dynamics," PLOS Computational Biology, Public Library of Science, vol. 10(7), pages 1-17, July.
  26. 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.
  27. Christine Andres & Jan Hasenauer & Frank Allgower & Tim Hucho, 2012. "Threshold-Free Population Analysis Identifies Larger DRG Neurons to Respond Stronger to NGF Stimulation," PLOS ONE, Public Library of Science, vol. 7(3), pages 1-14, March.
  28. Davin Lunz & Gregory Batt & Jakob Ruess & J Frédéric Bonnans, 2021. "Beyond the chemical master equation: Stochastic chemical kinetics coupled with auxiliary processes," PLOS Computational Biology, Public Library of Science, vol. 17(7), pages 1-24, July.
  29. Kajántó, Sándor & Néda, Zoltán, 2018. "Universality in the coarse-grained fluctuations for a class of linear dynamical systems," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 503(C), pages 215-220.
  30. Manikandan Narayanan & Andrew J Martins & John S Tsang, 2016. "Robust Inference of Cell-to-Cell Expression Variations from Single- and K-Cell Profiling," PLOS Computational Biology, Public Library of Science, vol. 12(7), pages 1-33, July.
  31. Shuangyu Bi & Manika Kargeti & Remy Colin & Niklas Farke & Hannes Link & Victor Sourjik, 2023. "Dynamic fluctuations in a bacterial metabolic network," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
  32. Ziya Kalay & Takahiro K Fujiwara & Akihiro Kusumi, 2012. "Confining Domains Lead to Reaction Bursts: Reaction Kinetics in the Plasma Membrane," PLOS ONE, Public Library of Science, vol. 7(3), pages 1-8, March.
  33. Xiaoling Zhai & Joseph W Larkin & Kaito Kikuchi & Samuel E Redford & Ushasi Roy & Gürol M Süel & Andrew Mugler, 2019. "Statistics of correlated percolation in a bacterial community," PLOS Computational Biology, Public Library of Science, vol. 15(12), pages 1-19, December.
  34. Song, Yi & Xu, Wei, 2021. "Asymmetric Lévy noise changed stability in a gene transcriptional regulatory system," Chaos, Solitons & Fractals, Elsevier, vol. 151(C).
  35. Georg Fritz & Judith A Megerle & Sonja A Westermayer & Delia Brick & Ralf Heermann & Kirsten Jung & Joachim O Rädler & Ulrich Gerland, 2014. "Single Cell Kinetics of Phenotypic Switching in the Arabinose Utilization System of E. coli," PLOS ONE, Public Library of Science, vol. 9(2), pages 1-12, February.
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