Doyle, John

Article from CaltechAUTHORS

• Matni, Nikolai and Ames, Aaron D., el al. (2024) A Quantitative Framework for Layered Multirate Control: Toward a Theory of Control Architecture; IEEE Control Systems; Vol. 44; No. 3; 52-94; 10.1109/mcs.2024.3382388
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• Khazaei, Tahmineh and Williams, Rory L., el al. (2020) Metabolic multistability and hysteresis in a model aerobe-anaerobe microbiome community; Science Advances; Vol. 6; No. 33; Art. No. eaba0353; PMCID PMC7423363; 10.1126/sciadv.aba0353
• Keating, Sarah M. and Waltemath, Dagmar, el al. (2020) SBML Level 3: an extensible format for the exchange and reuse of biological models; Molecular Systems Biology; Vol. 16; No. 8; Art. No. e9110; 10.15252/msb.20199110
• Siami, Milad and Motee, Nader, el al. (2020) Fundamental Limits and Tradeoffs in Autocatalytic Pathways; IEEE Transactions on Automatic Control; Vol. 65; No. 2; 733-740; 10.1109/tac.2019.2921671
• Alderson, David L. and Doyle, John C., el al. (2019) Lessons from "a first-principles approach to understanding the internet's router-level topology"; ACM SIGCOMM Computer Communication Review; Vol. 49; No. 5; 96-103; 10.1145/3371934.3371964
• Wang, Yuh-Shyang and Matni, Nikolai, el al. (2019) A System Level Approach to Controller Synthesis; IEEE Transactions on Automatic Control; Vol. 64; No. 10; 4079-4093; 10.1109/tac.2018.2890753
• Olsman, Noah and Baetica, Ania-Ariadna, el al. (2019) Hard Limits and Performance Tradeoffs in a Class of Antithetic Integral Feedback Networks; Cell Systems; Vol. 9; No. 1; 49-63; 10.1016/j.cels.2019.06.001
• Anderson, James and Doyle, John C., el al. (2019) System level synthesis; Annual Reviews in Control; Vol. 47; 364-393; 10.1016/j.arcontrol.2019.03.006
• Olsman, Noah and Xiao, Fangzhou, el al. (2019) Architectural Principles for Characterizing the Performance of Antithetic Integral Feedback Networks; iScience; Vol. 14; 277-291; PMCID PMC6479019; 10.1016/j.isci.2019.04.004
• Mavroudis, Panteleimon D. and Scheff, Jeremy D., el al. (2019) Impact of Stochasticity and Its Control on a Model of the Inflammatory Response; Computation; Vol. 7; Art. No. 3; 10.3390/computation7010003
• Wang, Yuh-Shyang and Matni, Nikolai, el al. (2018) Separable and Localized System Level Synthesis for Large-Scale Systems; IEEE Transactions on Automatic Control; Vol. 63; No. 12; 4234-4249; 10.1109/TAC.2018.2819246
• Wu, Ning and Bi, Yingjie, el al. (2018) A Control-Theoretic Approach to In-Network Congestion Management; IEEE/ACM Transactions on Networking; Vol. 26; No. 6; 2443-2456; 10.1109/tnet.2018.2866785
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• Leong, Yoke Peng and Doyle, John C. (2017) Effects of Delays, Poles, and Zeros on Time Domain Waterbed Tradeoffs and Oscillations; IEEE Control Systems Letters; Vol. 1; No. 1; 122-127; 10.1109/LCSYS.2017.2710327
• Csete, Marie and Doyle, John (2017) 15th International Conference on Complex Acute Illness (ICCAI) Society for Complex Acute Illness: August 10–14, 2016 at the Beckman Institute, Caltech; Journal of Critical Care; Vol. 38; 340; 10.1016/j.jcrc.2016.11.011
• Jonsson, Vanessa D. and Blakely, Collin M., el al. (2017) Novel computational method for predicting polytherapy switching strategies to overcome tumor heterogeneity and evolution; Scientific Reports; Vol. 7; Art. No. 44206; PMCID PMC5347024; 10.1038/srep44206
• Das, Anup and Sampson, Aaron L., el al. (2017) Interpretation of the Precision Matrix and Its Application in Estimating Sparse Brain Connectivity during Sleep Spindles from Human Electrocorticography Recordings; Neural Computation; Vol. 29; No. 3; 603-642; PMCID PMC5424817; 10.1162/NECO_a_00936
• Kempes, Christopher P. and Wang, Lawrence, el al. (2016) Evolutionary tradeoffs in cellular composition across diverse bacteria; ISME Journal; Vol. 10; No. 9; 2145-2157; 10.1038/ismej.2016.21
• Doyle, John C. (2016) Even Noisy Responses Can Be Perfect If Integrated Properly; Cell Systems; Vol. 2; No. 2; 73-75; 10.1016/j.cels.2016.02.012
• Nair, Jayakrishnan and Andreasson, Martin, el al. (2016) On Channel Failures, File Fragmentation Policies, and Heavy-Tailed Completion Times; IEEE/ACM Transactions on Networking; Vol. 24; No. 1; 529-541; 10.1109/TNET.2014.2375920
• Lamperski, Andrew and Doyle, John C. (2015) The ℋ_2 Control Problem for Quadratically Invariant Systems With Delays; IEEE Transactions on Automatic Control; Vol. 60; No. 7; 1945-1950; 10.1109/TAC.2014.2363917
• Sojoudi, Somayeh and Low, Steven H., el al. (2014) Buffering Dynamics and Stability of Internet Congestion Controllers; IEEE/ACM Transactions on Networking; Vol. 22; No. 6; 1808-1818; 10.1109/TNET.2013.2287198
• Csete, Marie and Doyle, John (2014) The mathematician's control toolbox for management of type 1 diabetes; Interface Focus; Vol. 4; No. 5; Art. No. 20140042; PMCID PMC4142019; 10.1098/rsfs.2014.0042
• Li, Na and Cruz, Jerry, el al. (2014) Robust efficiency and actuator saturation explain healthy heart rate control and variability; Proceedings of the National Academy of Sciences of the United States of America; Vol. 111; No. 33; E3476-E3485; PMCID PMC4143073; 10.1073/pnas.1401883111
• Matni, Nikolai and Leong, Yoke Peng, el al. (2014) Resilience in Large Scale Distributed Systems; Procedia Computer Science; Vol. 28; 285-293; 10.1016/j.procs.2014.03.036
• Caporale, Lynn Helena and Doyle, John (2013) In Darwinian evolution, feedback from natural selection leads to biased mutations; Annals of the New York Academy of Sciences; Vol. 1305; 18-28; 10.1111/nyas.12235
• Scheff, Jeremy D. and Mavroudis, Panteleimon D., el al. (2013) A multiscale modeling approach to inflammation: A case study in human endotoxemia; Journal of Computational Physics; Vol. 244; 279-289; 10.1016/j.jcp.2012.09.024
• Chen, Lijun and Ho, Tracey, el al. (2012) Congestion Control for Multicast Flows With Network Coding; IEEE Transactions on Information Theory; Vol. 58; No. 9; 5908-5921; 10.1109/TIT.2012.2204170
• Namas, Rami and Zamora, Ruben, el al. (2012) Sepsis: Something old, something new, and a systems view; Journal of Critical Care; Vol. 27; No. 3; 314.e1-314.e11; 10.1016/j.jcrc.2011.05.025
• Page, Morgan T. and Alderson, David, el al. (2011) The magnitude distribution of earthquakes near Southern California faults; Journal of Geophysical Research B; Vol. 116; Art. No. B12309; 10.1029/2010JB007933
• Doyle, John C. and Csete, Marie (2011) Architecture, constraints, and behavior; Proceedings of the National Academy of Sciences of the United States of America; Vol. 108; No. S3; 15624-15630; PMCID PMC3176601; 10.1073/pnas.1103557108
• Chandra, Fiona A. and Gayme, Dennice F., el al. (2011) Robustness, Optimization, and Architectures; European Journal of Control; Vol. 17; No. 5-6; 472-482; 10.3166/ejc.17.472-482
• Chandra, Fiona A. and Buzi, Gentian, el al. (2011) Glycolytic Oscillations and Limits on Robust Efficiency; Science; Vol. 333; No. 6039; 187-192; 10.1126/science.1200705
• Gayme, Dennice F. and McKeon, Beverley J., el al. (2011) Amplification and nonlinear mechanisms in plane Couette flow; Physics of Fluids; Vol. 23; No. 6; 065108; 10.1063/1.3599701
• Buzi, Gentian and Topcu, Ufuk, el al. (2011) Analysis of autocatalytic networks in biology; Automatica; Vol. 47; No. 6; 1123-1130; 10.1016/j.automatica.2011.02.040
• Chen, Lijun and Low, Steven H., el al. (2011) Cross-layer design in multihop wireless networks; Computer Networks; Vol. 55; No. 2; 480-496; 10.1016/j.comnet.2010.09.005
• Sandberg, Henrik and Delvenne, Jean-Charles, el al. (2011) On Lossless Approximations, the Fluctuation-Dissipation Theorem, and Limitations of Measurements; IEEE Transactions on Automatic Control; Vol. 56; No. 2; 293-308; 10.1109/TAC.2010.2056450
• Lavaei, Javad and Babakhani, Aydin, el al. (2011) Solving Large-Scale Hybrid Circuit-Antenna Problems; IEEE Transactions on Circuits and Systems I: Regular Papers; Vol. 58; No. 2; 374-387; 10.1109/TCSI.2010.2072010
• Chen, Lijun and Low, Steven H., el al. (2010) Random Access Game and Medium Access Control Design; IEEE/ACM Transactions on Networking; Vol. 18; No. 4; 1303-1316; 10.1109/TNET.2010.2041066
• Alderson, David L. and Doyle, John C. (2010) Contrasting Views of Complexity and Their Implications For Network-Centric Infrastructures; IEEE Transactions on Systems Man and Cybernetics - Part A Systems and Humans; Vol. 40; No. 4; 839-852; 10.1109/TSMCA.2010.2048027
• Gayme, D. F. and McKeon, B. J., el al. (2010) A streamwise constant model of turbulence in plane Couette flow; Journal of Fluid Mechanics; Vol. 665; 99-119; 10.1017/S0022112010003861
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• Arkin, Adam and Doyle, John (2008) Appreciation of the Machinations of the Blind Watchmaker; IEEE Transactions on Automatic Control; Vol. 53; No. Specia; 8-9; 10.1109/TAC.2007.913342
• Doyle, John and Csete, Marie (2007) Rules of engagement; Nature; Vol. 446; No. 7138; 860; 10.1038/446860a
• Chiang, Mung and Low, Steven H., el al. (2007) Layering as Optimization Decomposition: A Mathematical Theory of Network Architectures; Proceedings of the IEEE; Vol. 95; No. 1; 255-312; 10.1109/JPROC.2006.887322
• Martins, Nuno C. and Dahleh, Munther A., el al. (2007) Fundamental Limitations of Disturbance Attenuation in the Presence of Side Information; IEEE Transactions on Automatic Control; Vol. 52; No. 1; 56-66; 10.1109/TAC.2006.887898
• Kurata, Hiroyuki and El-Samad, Hana, el al. (2006) Module-Based Analysis of Robustness Tradeoffs in the Heat Shock Response System; PLOS Computational Biology; Vol. 2; No. 7; 663-675; PMCID PMC1523291; 10.1371/journal.pcbi.0020059
• El-Samad, Hana and Prajna, Stephen, el al. (2006) Advanced methods and algorithms for biological networks analysis; Proceedings of the IEEE; Vol. 94; No. 4; 832-853; 10.1109/JPROC.2006.871776
• Moritz, Max A. and Morais, Marco E., el al. (2005) Wildfires, complexity, and highly optimized tolerance; Proceedings of the National Academy of Sciences of the United States of America; Vol. 102; No. 50; 17912-17917; PMCID PMC1312407; 10.1073/pnas.0508985102
• Tanaka, R. and Csete, M., el al. (2005) Highly optimised global organisation of metabolic networks; Systems Biology; Vol. 152; No. 4; 179-184; 10.1049/ip-syb:20050042
• Alderson, David and Li, Lun, el al. (2005) Understanding Internet topology: principles, models, and validation; IEEE/ACM Transactions on Networking; Vol. 13; No. 6; 1205-1218; 10.1109/TNET.2005.861250
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• Doyle, John and Csete, Marie (2005) Motifs, Control, and Stability; PLoS Biology; Vol. 3; No. 11; e392; PMCID PMC1283396; 10.1371/journal.pbio.0030392
• Doyle, John C. and Anderson, David L., el al. (2005) The "robust yet fragile" nature of the Internet; Proceedings of the National Academy of Sciences of the United States of America; Vol. 102; No. 41; 14497-14502; PMCID PMC1240072; 10.1073/pnas.0501426102
• Manning, M. and Carlson, J. M., el al. (2005) Highly optimized tolerance and power laws in dense and sparse resource regimes; Physical Review E; Vol. 72; No. 1; Art. No. 016108; 10.1103/PhysRevE.72.016108
• Wang, Jiantao and Li, Lun, el al. (2005) Cross-layer optimization in TCP/IP networks; IEEE/ACM Transactions on Networking; Vol. 13; No. 3; 582-595; 10.1109/TNET.2005.850219
• El-Samad, H. and Kurata, H., el al. (2005) Surviving heat shock: Control strategies for robustness and performance; Proceedings of the National Academy of Sciences of the United States of America; Vol. 102; No. 8; 2736-2741; PMCID PMC549435; 10.1073/pnas.403510102
• Paganini, Fernando and Wang, Zhikui, el al. (2005) Congestion control for high performance, stability, and fairness in general networks; IEEE/ACM Transactions on Networking; Vol. 13; No. 1; 43-56; 10.1109/TNET.2004.842216
• Jin, Cheng and Wei, David X., el al. (2005) FAST TCP: from theory to experiments; IEEE Network; Vol. 19; No. 1; 4-11; 10.1109/MNET.2005.1383434
• Shapiro, Bruce E. and Hucka, Michael, el al. (2004) MathSBML: a package for manipulating SBML-based biological models; Bioinformatics; Vol. 20; No. 16; 2829-2831; PMCID PMC1409765; 10.1093/bioinformatics/bth271
• Doyle, John and Csete, Marie (2004) Imitation of life: How biology is inspiring computing [Book Review]; Nature; Vol. 431; No. 7011; 908-909; 10.1038/431908a
• Stelling, Jörg and Sauer, Uwe, el al. (2004) Robustness of Cellular Functions; Cell; Vol. 118; No. 6; 675-685; 10.1016/j.cell.2004.09.008
• Papachristodoulou, Antonis and Li, Lun, el al. (2004) Methodological frameworks for large-scale network analysis and design; ACM SIGCOMM Computer Communication Review; Vol. 34; No. 3; 7-20; 10.1145/1031134.1031138
• Hucka, M. and Finney, A., el al. (2004) Evolving a lingua franca and associated software infrastructure for computational systems biology: the Systems Biology Markup Language (SBML) project; Systems Biology; Vol. 1; No. 1; 41-53; 10.1049/sb:20045008
• Low, Steven H. and Paganini, Fernando, el al. (2003) Linear stability of TCP/RED and a scalable control; Computer Networks; Vol. 43; No. 5; 633-647; 10.1016/S1389-1286(03)00304-9
• Sauro, Herbert M. and Hucka, Michael, el al. (2003) Next Generation Simulation Tools: The Systems Biology Workbench and BioSPICE Integration; OMICS: A Journal of Integrative Biology; Vol. 7; No. 4; 355-372; 10.1089/153623103322637670
• Hucka, M. and Finney, A., el al. (2003) The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models; Bioinformatics; Vol. 19; No. 4; 524-531; 10.1093/bioinformatics/btg015
• Alderson, David and Doyle, John, el al. (2003) Toward an Optimization-Driven Framework for Designing and Generating Realistic Internet Topologies; ACM SIGCOMM Computer Communication Review; Vol. 33; No. 1; 41-46; 10.1145/774763.774769
• Gilman, Alfred G. and Simon, Melvin I., el al. (2002) Overview of the Alliance for Cellular Signaling; Nature; Vol. 420; No. 6916; 703-706; 10.1038/nature01304
• Reynolds, David and Carlson, J. M., el al. (2002) Design degrees of freedom and mechanisms for complexity; Physical Review E; Vol. 66; No. 1; Art. no. 016108; 10.1103/PhysRevE.66.016108
• Csete, Marie E. and Doyle, John C. (2002) Reverse Engineering of Biological Complexity; Science; Vol. 295; No. 5560; 1664-1669; 10.1126/science.1069981
• Zhou, Tong and Carlson, J. M., el al. (2002) Mutation, specialization, and hypersensitivity in highly optimized tolerance; Proceedings of the National Academy of Sciences of the United States of America; Vol. 99; No. 4; 2049-2054; PMCID PMC122317; 10.1073/pnas.261714399
• Carlson, J. M. and Doyle, John (2002) Complexity and robustness; Proceedings of the National Academy of Sciences of the United States of America; Vol. 99; No. Suppl.; 2538-2545; PMCID PMC128573; 10.1073/pnas.012582499
• Low, Steven H. and Paganini, Fernando, el al. (2002) Internet congestion control; IEEE Control Systems Magazine; Vol. 22; No. 1; 28-43; 10.1109/37.980245
• Tangmunarunkit, Hongsuda and Doyle, John, el al. (2001) Does AS size determine degree in as topology?; ACM SIGCOMM Computer Communication Review; Vol. 31; No. 5; 7-8; 10.1145/1037107.1037108
• Doyle, John (2001) Beyond the spherical cow; Nature; Vol. 411; No. 6834; 151-152; 10.1038/35075703
• Robert, Carl and Carlson, J. M., el al. (2001) Highly optimized tolerance in epidemic models incorporating local optimization and regrowth; Physical Review E; Vol. 63; No. 5; Art. no. 056122; 10.1103/PhysRevE.63.056122
• Doyle, John and Carlson, J. M. (2000) Power Laws, Highly Optimized Tolerance, and Generalized Source Coding; Physical Review Letters; Vol. 84; No. 24; 5656-5659; 10.1103/PhysRevLett.84.5656
• Primbs, James A. and Nevistić, Vesna, el al. (2000) A receding horizon generalization of pointwise min-norm controllers; IEEE Transactions on Automatic Control; Vol. 45; No. 5; 898-909; 10.1109/9.855550
• Yi, Tau-Mu and Huang, Yun, el al. (2000) Robust perfect adaptation in bacterial chemotaxis through integral feedback control; Proceedings of the National Academy of Sciences of the United States of America; Vol. 97; No. 9; 4649-4653; PMCID PMC18287
• Carlson, J. M. and Doyle, John (2000) Highly Optimized Tolerance: Robustness and Design in Complex Systems; Physical Review Letters; Vol. 84; No. 11; 2529-2532; 10.1103/PhysRevLett.84.2529
• Becker, Carolyn L. and Doyle, John (1999) A necessary and sufficient minimality condition for uncertain systems; IEEE Transactions on Automatic Control; Vol. 44; No. 10; 1802-1813; 10.1109/9.793720
• Carlson, J. M. and Doyle, John (1999) Highly optimized tolerance: A mechanism for power laws in designed systems; Physical Review E; Vol. 60; No. 2; 1412-1427; 10.1103/PhysRevE.60.1412
• Lundström, Petter and Skogestad, Sigurd, el al. (1999) Two-degree-of-freedom controller design for an ill-conditioned distillation process using µ-synthesis; IEEE Transactions on Control Systems Technology; Vol. 7; No. 1; 12-21; 10.1109/87.736744
• Lu, Wei-Min and Doyle, John C. (1997) Robustness analysis and synthesis for nonlinear uncertain systems; IEEE Transactions on Automatic Control; Vol. 42; No. 12; 1654-1662; 10.1109/9.650015
• Young, Peter M. and Doyle, John C. (1997) A lower bound for the mixed µ problem; IEEE Transactions on Automatic Control; Vol. 42; No. 1; 123-128; 10.1109/9.553696
• Beck, Carolyn L. and Doyle, John, el al. (1996) Model reduction of multidimensional and uncertain systems; IEEE Transactions on Automatic Control; Vol. 41; No. 10; 1466-1477; 10.1109/9.539427
• Doyle, John and Murray, Richard (1996) Robust Nonlinear Control Theory with Applications to Aerospace Vehicles; IFAC Proceedings Volumes; Vol. 29; No. 1; 7624-7629; 10.1016/s1474-6670(17)58916-8
• Young, Peter M. and Doyle, John C. (1996) Properties of the mixed μ problem and its bounds; IEEE Transactions on Automatic Control; Vol. 41; No. 1; 155-159; 10.1109/9.481624
• Lu, Wei-Min and Zhou, Kemin, el al. (1996) Stabilization of uncertain linear systems: an LFT approach; IEEE Transactions on Automatic Control; Vol. 41; No. 1; 50-65; 10.1109/9.481607
• Lu, Wei-Min and Doyle, John C. (1995) H∞ control of nonlinear systems: a convex characterization; IEEE Transactions on Automatic Control; Vol. 40; No. 9; 1668-1675; 10.1109/9.412643
• Balas, Gary J. and Doyle, John C. (1994) Robustness and performance trade-offs in control design for flexible structures; IEEE Transactions on Control Systems Technology; Vol. 2; No. 4; 352-361; 10.1109/87.338656
• Lu, Wei-Min and Doyle, John C. (1994) ℋ∞ control of nonlinear systems via output feedback: controller parameterization; IEEE Transactions on Automatic Control; Vol. 39; No. 12; 2517-2521; 10.1109/9.362834
• Doyle, John and Zhou, Kemin, el al. (1994) Mixed H_2 and H∞ performance objectives. II. Optimal control; IEEE Transactions on Automatic Control; Vol. 39; No. 8; 1575-1587; 10.1109/9.310031
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• Packard, A. and Doyle, J. (1993) The complex structured singular value; Automatica; Vol. 29; No. 1; 71-109; 10.1016/0005-1098(93)90175-S
• Smith, Roy S. and Doyle, John C. (1992) Model validation: a connection between robust control and identification; IEEE Transactions on Automatic Control; Vol. 37; No. 7; 942-952; 10.1109/9.148346
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• Balas, Gary J. and Doyle, John C. (1990) Identification of flexible structures for robust control; IEEE Control Systems Magazine; Vol. 10; No. 4; 51-58; 10.1109/37.56278
• Packard, Andy and Doyle, John (1990) Quadratic stability with real and complex perturbations; IEEE Transactions on Automatic Control; Vol. 35; No. 2; 198-201; 10.1109/9.45179
• Doyle, John C. and Glover, Keith, el al. (1989) State-space solutions to standard H2 and H∞ control problems; IEEE Transactions on Automatic Control; Vol. 34; No. 8; 831-847; 10.1109/9.29425
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• Doyle, J. C. and Konar, A. F., el al. (1982) Digikon and Honey-X: Interative packages for control system analysis and design; IEEE Control Systems Magazine; Vol. 2; No. 4; 49-50; 10.1109/mcs.1982.1103759
• Doyle, John (1982) Analysis of feedback systems with structured uncertainties; IEE Proceedings D Control Theory and Applications; Vol. 129; No. 6; 242-250; 10.1049/ip-d.1982.0053
• Doyle, John C. and Stein, Gunter (1981) Multivariable feedback design: Concepts for a classical/modern synthesis; IEEE Transactions on Automatic Control; Vol. 26; No. 1; 4-16; 10.1109/tac.1981.1102555
• Doyle, J. C. and Stein, G. (1979) Robustness with observers; IEEE Transactions on Automatic Control; Vol. 24; No. 4; 607-611; 10.1109/tac.1979.1102095
• Doyle, John C. (1978) Guaranteed margins for LQG regulators; IEEE Transactions on Automatic Control; Vol. 23; No. 4; 756-757; 10.1109/tac.1978.1101812