Noise Contributions in an Inducible Genetic Switch: A Whole-Cell Simulation Study
Author
Abstract
Suggested Citation
DOI: 10.1371/journal.pcbi.1002010
Download full text from publisher
References listed on IDEAS
- William J. Blake & Mads KÆrn & Charles R. Cantor & J. J. Collins, 2003. "Noise in eukaryotic gene expression," Nature, Nature, vol. 422(6932), pages 633-637, April.
- Arjun Raj & Scott A. Rifkin & Erik Andersen & Alexander van Oudenaarden, 2010. "Variability in gene expression underlies incomplete penetrance," Nature, Nature, vol. 463(7283), pages 913-918, February.
- Paula Montero Llopis & Audrey F. Jackson & Oleksii Sliusarenko & Ivan Surovtsev & Jennifer Heinritz & Thierry Emonet & Christine Jacobs-Wagner, 2010. "Spatial organization of the flow of genetic information in bacteria," Nature, Nature, vol. 466(7302), pages 77-81, July.
- Arjun Raj & Charles S Peskin & Daniel Tranchina & Diana Y Vargas & Sanjay Tyagi, 2006. "Stochastic mRNA Synthesis in Mammalian Cells," PLOS Biology, Public Library of Science, vol. 4(10), pages 1-13, September.
- Johan Paulsson, 2004. "Summing up the noise in gene networks," Nature, Nature, vol. 427(6973), pages 415-418, January.
Citations
Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
Cited by:
- Echeverria, Carlos & Herrera, José L. & Alvarez-Llamoza, Orlando & Morales, Miguel & Tucci, Kay, 2019. "Damping and clustering into crowded environment of catalytic chemical oscillators," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 517(C), pages 297-306.
- 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.
- Johannes Schöneberg & Frank Noé, 2013. "ReaDDy - A Software for Particle-Based Reaction-Diffusion Dynamics in Crowded Cellular Environments," PLOS ONE, Public Library of Science, vol. 8(9), pages 1-14, September.
- Kudtarkar, Santosh Kumar & Dhadwal, Renu, 2023. "Noise induced bistability in a fluctuating environment," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 615(C).
Most related items
These are the items that most often cite the same works as this one and are cited by the same works as this one.- Chen, Aimin & Tian, Tianhai & Chen, Yiren & Zhou, Tianshou, 2022. "Stochastic analysis of a complex gene-expression model," Chaos, Solitons & Fractals, Elsevier, vol. 160(C).
- 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.
- Namiko Mitarai & Ian B Dodd & Michael T Crooks & Kim Sneppen, 2008. "The Generation of Promoter-Mediated Transcriptional Noise in Bacteria," PLOS Computational Biology, Public Library of Science, vol. 4(7), pages 1-9, July.
- Marc S Sherman & Barak A Cohen, 2014. "A Computational Framework for Analyzing Stochasticity in Gene Expression," PLOS Computational Biology, Public Library of Science, vol. 10(5), pages 1-13, May.
- Arjun Raj & Charles S Peskin & Daniel Tranchina & Diana Y Vargas & Sanjay Tyagi, 2006. "Stochastic mRNA Synthesis in Mammalian Cells," PLOS Biology, Public Library of Science, vol. 4(10), pages 1-13, September.
- Hui Zhang & Yueling Chen & Yong Chen, 2012. "Noise Propagation in Gene Regulation Networks Involving Interlinked Positive and Negative Feedback Loops," PLOS ONE, Public Library of Science, vol. 7(12), pages 1-8, December.
- Benjamin B Kaufmann & Qiong Yang & Jerome T Mettetal & Alexander van Oudenaarden, 2007. "Heritable Stochastic Switching Revealed by Single-Cell Genealogy," PLOS Biology, Public Library of Science, vol. 5(9), pages 1-8, September.
- 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.
- Jin Wang & Bo Huang & Xuefeng Xia & Zhirong Sun, 2006. "Funneled Landscape Leads to Robustness of Cell Networks: Yeast Cell Cycle," PLOS Computational Biology, Public Library of Science, vol. 2(11), pages 1-10, November.
- Sarah R. Fausett & Asma Sandjak & Bénédicte Billard & Christian Braendle, 2023. "Higher-order epistasis shapes natural variation in germ stem cell niche activity," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
- 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).
- Satish A Eraly, 2014. "Striking Differences between Knockout and Wild-Type Mice in Global Gene Expression Variability," PLOS ONE, Public Library of Science, vol. 9(5), pages 1-7, May.
- Aisha Hassan & Li Cui-Xia & Naveed Ahmad & Muzaffar Iqbal & Kramat Hussain & Muhammad Ishtiaq & Maira Abrar, 2021. "Safety Failure Factors Affecting Dairy Supply Chain: Insights from a Developing Economy," Sustainability, MDPI, vol. 13(17), pages 1-24, August.
- Stuart Aitken & Marie-Cécile Robert & Ross D Alexander & Igor Goryanin & Edouard Bertrand & Jean D Beggs, 2010. "Processivity and Coupling in Messenger RNA Transcription," PLOS ONE, Public Library of Science, vol. 5(1), pages 1-12, January.
- Kyung H Kim & Herbert M Sauro, 2012. "Adjusting Phenotypes by Noise Control," PLOS Computational Biology, Public Library of Science, vol. 8(1), pages 1-14, January.
- Blasi, Monica Francesca & Casorelli, Ida & Colosimo, Alfredo & Blasi, Francesco Simone & Bignami, Margherita & Giuliani, Alessandro, 2005. "A recursive network approach can identify constitutive regulatory circuits in gene expression data," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 348(C), pages 349-370.
- Singh, Abhyudai & Vahdat, Zahra & Xu, Zikai, 2019. "Time-triggered stochastic hybrid systems with two timer-dependent resets," OSF Preprints u8fzg, Center for Open Science.
- Muir Morrison & Manuel Razo-Mejia & Rob Phillips, 2021. "Reconciling kinetic and thermodynamic models of bacterial transcription," PLOS Computational Biology, Public Library of Science, vol. 17(1), pages 1-30, January.
- Valenti, D. & Tranchina, L. & Brai, M. & Caruso, A. & Cosentino, C. & Spagnolo, B., 2008. "Environmental metal pollution considered as noise: Effects on the spatial distribution of benthic foraminifera in two coastal marine areas of Sicily (Southern Italy)," Ecological Modelling, Elsevier, vol. 213(3), pages 449-462.
- 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.
Corrections
All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:plo:pcbi00:1002010. See general information about how to correct material in RePEc.
If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.
If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .
If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.
For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: ploscompbiol (email available below). General contact details of provider: https://journals.plos.org/ploscompbiol/ .
Please note that corrections may take a couple of weeks to filter through the various RePEc services.