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Robustness in simple biochemical networks

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Cited by:

  1. Diana Clausznitzer & Olga Oleksiuk & Linda Løvdok & Victor Sourjik & Robert G Endres, 2010. "Chemotactic Response and Adaptation Dynamics in Escherichia coli," PLOS Computational Biology, Public Library of Science, vol. 6(5), pages 1-11, May.
  2. Önder Kartal & Oliver Ebenhöh, 2009. "Ground State Robustness as an Evolutionary Design Principle in Signaling Networks," PLOS ONE, Public Library of Science, vol. 4(12), pages 1-8, December.
  3. Silke Neumann & Linda Løvdok & Kajetan Bentele & Johannes Meisig & Ekkehard Ullner & Ferencz S Paldy & Victor Sourjik & Markus Kollmann, 2014. "Exponential Signaling Gain at the Receptor Level Enhances Signal-to-Noise Ratio in Bacterial Chemotaxis," PLOS ONE, Public Library of Science, vol. 9(4), pages 1-11, April.
  4. 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.
  5. Robert J Prill & Pablo A Iglesias & Andre Levchenko, 2005. "Dynamic Properties of Network Motifs Contribute to Biological Network Organization," PLOS Biology, Public Library of Science, vol. 3(11), pages 1-1, October.
  6. Kazunari Kaizu & Hisao Moriya & Hiroaki Kitano, 2010. "Fragilities Caused by Dosage Imbalance in Regulation of the Budding Yeast Cell Cycle," PLOS Genetics, Public Library of Science, vol. 6(4), pages 1-12, April.
  7. Jae Kyoung Kim & Trachette L Jackson, 2013. "Mechanisms That Enhance Sustainability of p53 Pulses," PLOS ONE, Public Library of Science, vol. 8(6), pages 1-11, June.
  8. Zeina Shreif & Vipul Periwal, 2014. "A Network Characteristic That Correlates Environmental and Genetic Robustness," PLOS Computational Biology, Public Library of Science, vol. 10(2), pages 1-23, February.
  9. Michelle D Leach & Katarzyna M Tyc & Alistair J P Brown & Edda Klipp, 2012. "Modelling the Regulation of Thermal Adaptation in Candida albicans, a Major Fungal Pathogen of Humans," PLOS ONE, Public Library of Science, vol. 7(3), pages 1-14, March.
  10. Dong, Gaogao & Tian, Lixin & Du, Ruijin & Fu, Min & Stanley, H. Eugene, 2014. "Analysis of percolation behaviors of clustered networks with partial support–dependence relations," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 394(C), pages 370-378.
  11. Junjie Luo & Jun Wang & Ting Martin Ma & Zhirong Sun, 2010. "Reverse Engineering of Bacterial Chemotaxis Pathway via Frequency Domain Analysis," PLOS ONE, Public Library of Science, vol. 5(3), pages 1-8, March.
  12. Kirstin Meyer & Nicholas C. Lammers & Lukasz J. Bugaj & Hernan G. Garcia & Orion D. Weiner, 2023. "Optogenetic control of YAP reveals a dynamic communication code for stem cell fate and proliferation," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
  13. 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.
  14. David A Sivak & Matt Thomson, 2014. "Environmental Statistics and Optimal Regulation," PLOS Computational Biology, Public Library of Science, vol. 10(9), pages 1-12, September.
  15. Burton W Andrews & Tau-Mu Yi & Pablo A Iglesias, 2006. "Optimal Noise Filtering in the Chemotactic Response of Escherichia coli," PLOS Computational Biology, Public Library of Science, vol. 2(11), pages 1-12, November.
  16. Diana Clausznitzer & Gabriele Micali & Silke Neumann & Victor Sourjik & Robert G Endres, 2014. "Predicting Chemical Environments of Bacteria from Receptor Signaling," PLOS Computational Biology, Public Library of Science, vol. 10(10), pages 1-14, October.
  17. Deyan Luan & Michael Zai & Jeffrey D Varner, 2007. "Computationally Derived Points of Fragility of a Human Cascade Are Consistent with Current Therapeutic Strategies," PLOS Computational Biology, Public Library of Science, vol. 3(7), pages 1-13, July.
  18. Robert Planqué & Josephus Hulshof & Bas Teusink & Johannes C Hendriks & Frank J Bruggeman, 2018. "Maintaining maximal metabolic flux by gene expression control," PLOS Computational Biology, Public Library of Science, vol. 14(9), pages 1-20, September.
  19. Alejandro F Villaverde & Julio R Banga, 2017. "Dynamical compensation and structural identifiability of biological models: Analysis, implications, and reconciliation," PLOS Computational Biology, Public Library of Science, vol. 13(11), pages 1-18, November.
  20. Jasmin Fisher & Nir Piterman & Alex Hajnal & Thomas A Henzinger, 2007. "Predictive Modeling of Signaling Crosstalk during C. elegans Vulval Development," PLOS Computational Biology, Public Library of Science, vol. 3(5), pages 1-12, May.
  21. Robert M Cooper & Ned S Wingreen & Edward C Cox, 2012. "An Excitable Cortex and Memory Model Successfully Predicts New Pseudopod Dynamics," PLOS ONE, Public Library of Science, vol. 7(3), pages 1-12, March.
  22. Jinlong Yuan & Lei Wang & Xu Zhang & Enmin Feng & Hongchao Yin & Zhilong Xiu, 2015. "Parameter identification for a nonlinear enzyme-catalytic dynamic system with time-delays," Journal of Global Optimization, Springer, vol. 62(4), pages 791-810, August.
  23. Prabhat Shankar & Masatoshi Nishikawa & Tatsuo Shibata, 2015. "Adaptive Responses Limited by Intrinsic Noise," PLOS ONE, Public Library of Science, vol. 10(8), pages 1-20, August.
  24. Robyn P. Araujo & Lance A. Liotta, 2023. "Universal structures for adaptation in biochemical reaction networks," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
  25. Guillermo Rodrigo & Santiago F Elena, 2011. "Structural Discrimination of Robustness in Transcriptional Feedforward Loops for Pattern Formation," PLOS ONE, Public Library of Science, vol. 6(2), pages 1-7, February.
  26. Nikita Vladimirov & Linda Løvdok & Dirk Lebiedz & Victor Sourjik, 2008. "Dependence of Bacterial Chemotaxis on Gradient Shape and Adaptation Rate," PLOS Computational Biology, Public Library of Science, vol. 4(12), pages 1-17, December.
  27. Andrew C Ahn & Muneesh Tewari & Chi-Sang Poon & Russell S Phillips, 2006. "The Limits of Reductionism in Medicine: Could Systems Biology Offer an Alternative?," PLOS Medicine, Public Library of Science, vol. 3(6), pages 1-1, May.
  28. Jalili, Mahdi, 2011. "Error and attack tolerance of small-worldness in complex networks," Journal of Informetrics, Elsevier, vol. 5(3), pages 422-430.
  29. Miri Adler & Avi Mayo & Uri Alon, 2014. "Logarithmic and Power Law Input-Output Relations in Sensory Systems with Fold-Change Detection," PLOS Computational Biology, Public Library of Science, vol. 10(8), pages 1-14, August.
  30. Masatoshi Nishikawa & Tatsuo Shibata, 2010. "Nonadaptive Fluctuation in an Adaptive Sensory System: Bacterial Chemoreceptor," PLOS ONE, Public Library of Science, vol. 5(6), pages 1-12, June.
  31. Yuan, Jinlong & Zhu, Xi & Zhang, Xu & Yin, Hongchao & Feng, Enmin & Xiu, Zhilong, 2014. "Robust identification of enzymatic nonlinear dynamical systems for 1,3-propanediol transport mechanisms in microbial batch culture," Applied Mathematics and Computation, Elsevier, vol. 232(C), pages 150-163.
  32. Jonathan R Karr & Alex H Williams & Jeremy D Zucker & Andreas Raue & Bernhard Steiert & Jens Timmer & Clemens Kreutz & DREAM8 Parameter Estimation Challenge Consortium & Simon Wilkinson & Brandon A Al, 2015. "Summary of the DREAM8 Parameter Estimation Challenge: Toward Parameter Identification for Whole-Cell Models," PLOS Computational Biology, Public Library of Science, vol. 11(5), pages 1-21, May.
  33. Jiang, Xiong-Fei & Xiong, Long & Bai, Ling & Lin, Jie & Zhang, Jing-Feng & Yan, Kun & Zhu, Jia-Zhen & Zheng, Bo & Zheng, Jian-Jun, 2022. "Structure and dynamics of human complication-disease network," Chaos, Solitons & Fractals, Elsevier, vol. 164(C).
  34. Alessandro Romanel & Lars Juhl Jensen & Luca Cardelli & Attila Csikász-Nagy, 2012. "Transcriptional Regulation Is a Major Controller of Cell Cycle Transition Dynamics," PLOS ONE, Public Library of Science, vol. 7(1), pages 1-9, January.
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