The DOI matches its Crossref record; 63 of the 64 references it cites were found in a registry or an index.
Some new directions in control theory inspired by systems biology
Abstract
This paper, addressed primarily to engineers and mathematicians with an interest in control theory, argues that entirely new theoretical problems arise naturally when addressing questions in the field of systems biology. Examples from the author's recent work are used to illustrate this point.
Overview
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
Systems engineering and related disciplines can play a major role in modern systems biology.
“It seems therefore natural that systems engineering and related disciplines can play a major role in modern systems biology [5–9].”
From Reverse engineering and identification in systems biology: strategies, perspectives and challenges (2014) · cites this paper as [8]
Citations
Cites
Hanahan, D., & Weinberg, R. A. (2000) · Cell · doi:10.1016/s0092-8674(00)81683-9 · Cited by 29,219
From molecular to modular cell biology.
Hartwell, L. H., Hopfield, J. J., Leibler, S., & Murray, A. W. (1999) · Nature · doi:10.1038/35011540 · Cited by 3,632
Mitogen-Activated Protein Kinase: Conservation of a Three-Kinase Module From Yeast to Human
Widmann, C., Gibson, S. B., Jarpe, M. B., & Johnson, G. L. (1999) · Physiological Reviews · doi:10.1152/physrev.1999.79.1.143 · Cited by 2,707
Monotone Dynamical Systems: An Introduction to the Theory of Competitive and Cooperative Systems
Smith, H. L. (2008) · Mathematical surveys and monographs · doi:10.1090/surv/041 · Cited by 2,345
The Regulation of Cellular Systems
Heinrich, R., & Schuster, S. (1996) · Springer eBooks · doi:10.1007/978-1-4613-1161-4 · Cited by 1,202
Ultrasensitivity in the mitogen-activated protein kinase cascade.
Huang, C. Y., & Ferrell, J. E. (1996) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.93.19.10078 · Cited by 1,186
The Biochemical Basis of an All-or-None Cell Fate Switch in Xenopus Oocytes
Ferrell, J. E., & Machleder, E. M. (1998) · Science · doi:10.1126/science.280.5365.895 · Cited by 1,052
Robust perfect adaptation in bacterial chemotaxis through integral feedback control
Yi, T., Huang, Y. H., Simon, M. I., & Doyle, J. C. (2000) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.97.9.4649 · Cited by 1,038
Horn, F., & Jackson, R. (1972) · Archive for Rational Mechanics and Analysis · doi:10.1007/bf00251225 · Cited by 1,014
Angeli, D., Ferrell, J. E., & Sontag, E. D. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0308265100 · Cited by 1,007
Self-citationKinetic proofreading in T-cell receptor signal transduction.
McKeithan, T. W. (1995) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.92.11.5042 · Cited by 964
ENZYME INDUCTION AS AN ALL-OR-NONE PHENOMENON
Novick, A., & Weiner, M. (1957) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.43.7.553 · Cited by 891
Building a cell cycle oscillator: hysteresis and bistability in the activation of Cdc2
Pomerening, J. R., Sontag, E., & Ferrell, J. E. J. (2003) · Nature Cell Biology · doi:10.1038/ncb954 · Cited by 784
Self-citationBiochemical Systems Analysis: A Study of Function and Design in Molecular Biology
Savageau, M. A. (1976) · Medical Entomology and Zoology · Cited by 741
A positive-feedback-based bistable ‘memory module’ that governs a cell fate decision.
Xiong, W., & Ferrell, J. E. (2003) · Nature · doi:10.1038/nature02089 · Cited by 741
Feinberg, M. (1987) · Chemical Engineering Science · doi:10.1016/0009-2509(87)80099-4 · Cited by 729
Savageau, M. A. (1969) · Journal of Theoretical Biology · doi:10.1016/s0022-5193(69)80026-3 · Cited by 724
Angeli, D., & Sontag, E. D. (2003) · IEEE Transactions on Automatic Control · doi:10.1109/tac.2003.817920 · Cited by 683
Self-citationKholodenko, B. N. (2000) · European Journal of Biochemistry · doi:10.1046/j.1432-1327.2000.01197.x · Cited by 643
Bhalla, U. S., Ram, P. T., & Iyengar, R. (2002) · Science · doi:10.1126/science.1068873 · Cited by 636
Hirsch, M. W. (1985) · SIAM Journal on Mathematical Analysis · doi:10.1137/0516030 · Cited by 538
Hysteresis drives cell-cycle transitions in Xenopus laevis egg extracts
Sha, W., Moore, J., Chen, K., Lassaletta, A. D., Yi, C.-S., Tyson, J. J., & Sible, J. C. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0235349100 · Cited by 493
Lisman, J. E. (1985) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.82.9.3055 · Cited by 475
Untangling the wires: A strategy to trace functional interactions in signaling and gene networks
Kholodenko, B. Ν., Kiyatkin, A. B., Bruggeman, F. J., Sontag, E. D., Westerhoff, H. V., & Hoek, J. B. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.192442699 · Cited by 422
Self-citationThe Dynamics of Feedback Control Circuits in Biochemical Pathways
Tyson, J. J., & Othmer, H. G. (1978) · Elsevier eBooks · doi:10.1016/b978-0-12-543105-7.50008-7 · Cited by 353
Necessary and sufficient conditions for complex balancing in chemical kinetics
Horn, F. (1972) · Archive for Rational Mechanics and Analysis · doi:10.1007/bf00255664 · Cited by 352
On the differential equations of species in competition
Smale, S. (1976) · Journal of Mathematical Biology · doi:10.1007/bf00307854 · Cited by 329
Sontag, E. D. (2001) · IEEE Transactions on Automatic Control · doi:10.1109/9.935056 · Cited by 297
Self-citationInstability results for reaction diffusion equations with Neumann boundary conditions
Casten, R. G., & Holland, C. J. (1978) · Journal of Differential Equations · doi:10.1016/0022-0396(78)90033-5 · Cited by 256
Cell signaling pathways as control modules: Complexity for simplicity?
Lauffenburger, D. A. (2000) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.97.10.5031 · Cited by 255
Testing a Mathematical Model of the Yeast Cell Cycle
Cross, F. R., Archambault, V., Miller, M. E., & Klovstad, M. S. (2002) · Molecular Biology of the Cell · doi:10.1091/mbc.01-05-0265 · Cited by 255
Differential Equations and Mathematical Biology
Jones, D. S., Plank, M. J., & Sleeman, B. D. (2009) · Chapman & Hall/CRC eBooks · doi:10.1201/9781420083583 · Cited by 237
EGFR activation coupled to inhibition of tyrosine phosphatases causes lateral signal propagation
Reynolds, A. R., Tischer, C., Verveer, P. J., Rocks, O., & Bastiaens, P. I. H. (2003) · Nature Cell Biology · doi:10.1038/ncb981 · Cited by 235
The spatial homogeneity of stable equilibria of some reaction-diffusion systems on convex domains
Kishimoto, K., & Weinberger, H. F. (1985) · Journal of Differential Equations · doi:10.1016/0022-0396(85)90020-8 · Cited by 192
Asthagiri, A. R., & Lauffenburger, D. A. (2001) · Biotechnology Progress · doi:10.1021/bp010009k · Cited by 187
Sontag, E. D., Kiyatkin, A. B., & Kholodenko, B. Ν. (2004) · Bioinformatics · doi:10.1093/bioinformatics/bth173 · Cited by 182
Self-citationA genetic switch : phage λ and higher organisms
Ptashne, M. (1992) · Medical Entomology and Zoology · Cited by 173
Multi-stability in monotone input/output systems
Angeli, D., & Sontag, E. D. (2003) · Systems & Control Letters · doi:10.1016/j.sysconle.2003.08.003 · Cited by 173
Self-citationAdaptation and regulation with signal detection implies internal model
Sontag, E. D. (2003) · Systems & Control Letters · doi:10.1016/s0167-6911(03)00136-1 · Cited by 152
Self-citationThe JNK Cascade as a Biochemical Switch in Mammalian Cells
Bagowski, C. P., Besser, J., Frey, C. R., & Ferrell, J. E. (2003) · Current Biology · doi:10.1016/s0960-9822(03)00083-6 · Cited by 139
Stability Properties of Solutions to Systems of Reaction-Diffusion Equations
Casten, R. G., & Holland, C. J. (1977) · SIAM Journal on Applied Mathematics · doi:10.1137/0133023 · Cited by 118
Analysis of structural robustness of metabolic networks
Wilhelm, T. E., Behre, J., & Schuster, S. (2004) · Systems Biology · doi:10.1049/sb:20045004 · Cited by 94
Interconnections of Monotone Systems with Steady-State Characteristics
Angeli, D., & Sontag, E. D. (2004) · Lecture notes in control and information sciences · doi:10.1007/978-3-540-39983-4_9 · Cited by 81
Self-citationMonotone systems under positive feedback: multistability and a reduction theorem
Enciso, G., & Sontag, E. D. (2004) · Systems & Control Letters · doi:10.1016/j.sysconle.2004.08.003 · Cited by 70
Self-citationFor Differential Equations with r Parameters, 2r+1 Experiments Are Enough for Identification
Sontag (2002) · Journal of Nonlinear Science · doi:10.1007/s00332-002-0506-0 · Cited by 67
Differential Equations and Mathematical Biology
Jones, D. S., & Sleeman, B. D. (1983) · Springer eBooks · doi:10.1007/978-94-011-5970-8 · Cited by 66
Sontag, E. D. (2002) · Systems & Control Letters · doi:10.1016/s0167-6911(02)00191-3 · Cited by 62
Self-citationOn the stability of a model of testosterone dynamics
Enciso, G., & Sontag, E. D. (2004) · Journal of Mathematical Biology · doi:10.1007/s00285-004-0291-5 · Cited by 61
Self-citationState-estimators for Chemical Reaction Networks of Feinberg-Horn-Jackson Zero Deficiency Type
Chaves, M., & Sontag, E. D. (2002) · European Journal of Control · doi:10.3166/ejc.8.343-359 · Cited by 60
Self-citationBalancing at the border of instability
Moreau, L., & Sontag, E. D. (2003) · Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics · doi:10.1103/physreve.68.020901 · Cited by 53
Self-citationA small-gain theorem for almost global convergence of monotone systems
Angeli, D., Leenheer, P. D., & Sontag, E. D. (2004) · Systems & Control Letters · doi:10.1016/j.sysconle.2004.02.017 · Cited by 50
Self-citationLevin, S. A. (1979) · Springer series in synergetics · doi:10.1007/978-3-642-67480-8_20 · Cited by 40
Steady-states of receptor–ligand dynamics: a theoretical framework
Chaves, M., Sontag, E. D., & Dinerstein, R. J. (2004) · Journal of Theoretical Biology · doi:10.1016/j.jtbi.2003.11.019 · Cited by 30
Self-citationAn analysis of a circadian model using the small-gain approach to monotone systems
Angeli, D., & Sontag, E. D. (2004) · Proceedings of the IEEE Conference on Decision & Control, including the Symposium on Adaptive Processes · doi:10.1109/cdc.2004.1428692 · Cited by 27
Self-citationFeedback tuning of bifurcations
Moreau, L., Sontag, E. D., & Arcak, M. (2003) · Systems & Control Letters · doi:10.1016/s0167-6911(03)00157-9 · Cited by 24
Self-citationA Feedback Perspective for Chemostat Models with Crowding Effects
Leenheer, P. D., Angeli, D., & Sontag, E. D. (2004) · Lecture notes in control and information sciences · doi:10.1007/978-3-540-44928-7_23 · Cited by 22
Self-citationA tutorial on monotone systems- with an application to chemical reaction networks
Leenheer, P. D., Angeli, D., & Sontag, E. D. (2004) · Cited by 19
Self-citationBerman, P., DasGupta, B., & Sontag, E. D. (2004) · Lecture notes in computer science · doi:10.1007/978-3-540-27821-4_4 · Cited by 19
Self-citationA general framework for achieving integral control in chemotactic biological signaling mechanisms
Iglesias, P. A., & Levchenko, A. (2003) · Proceedings of the IEEE Conference on Decision & Control, including the Symposium on Adaptive Processes · doi:10.1109/cdc.2001.980211 · Cited by 17
Small-gain Theorems for Predator-prey Systems
Leenheer, P. D., Angeli, D., & Sontag, E. D. (2004) · Lecture notes in control and information sciences · doi:10.1007/978-3-540-44928-7_26 · Cited by 7
Self-citationBenvenuti, L., Santis, A. D., & Farina, L. (2003) · Springer eBooks · Cited by 6
A GENETIC SWITCH: PHAGE AND HIGHER ORGANISMS
Ptashne, M. (1992) · DigitalGeorgetown (Georgetown University Library) · Cited by 3
How feedback can tune a bifurcation parameter towards its unknown critical bifurcation value
Moreau, L., Sontag, E. D., & Arcak, M. (2004) · IEEE Conference on Decision and Control (CDC) · doi:10.1109/cdc.2003.1272979 · Cited by 1
Self-citation
Flagged first, then by citations
1 of the 64 references couldn’t be matched to a known paper.
Research works printed but not linked: 18
- Hanahan, 2000, 100, 57
- Lauffenburger, 2001, 17, 227
- Widmann, 1999, 79, 143
- Kholodenko, 2000, 267, 1583
- Shvartsman, 2000, preprint, MIT Chemical Engineering Department
- Hirsch, 1983, 17, 267
- Chaves, 2004, 227, 413
- De Leenheer, 2004, Proc. 16th Int. Symp. on Mathematical Theory of Networks and Systems, Leuven, Belgium
- Cross, 2002, 13, 52
- Pomerening, 2003, 5, 346
- Bagowski, 2003, 13, 315
- Reynolds, 2003, 5, 447
- Iglesias, 2001, Proc. IEEE Conf. on Decision and Control, Orlando, USA, 843
- Sontag, 2002, 12, 553
- Moreau, 2003, 68, 020901(1
- Moreau, 2003, Presented at IEEE Conf. on Decision and Control, Maui, USA
- Wofsy, 1999, Presented at Workshop on Mathematical Cellular Biology, Pacific Institute for the Mathematical Sciences, UBC, Vancouver
- Chaves, 2001, Proc. European Control Conf., Porto, Portugal, 3715
Cited by
Sorted by citations
Stability and Stabilization of Systems with Time Delay
Sipahi, R., Niculescu, S., Abdallah, C. T., Michiels, W., & Gu, K. (2011) · IEEE Control Systems · doi:10.1109/mcs.2010.939135 · Cited by 687
Control principles of complex systems
Liu, Y., & Barabási, A.-Ĺ. (2016) · Reviews of Modern Physics · doi:10.1103/revmodphys.88.035006 · Cited by 650
van Riel, N. A. W. (2006) · Briefings in Bioinformatics · doi:10.1093/bib/bbl040 · Cited by 259
Reverse engineering and identification in systems biology: strategies, perspectives and challenges
Villaverde, A. F., & Banga, J. R. (2014) · Journal of The Royal Society Interface · doi:10.1098/rsif.2013.0505 · Cited by 229
Monotone and near-monotone biochemical networks
Sontag, E. D. (2007) · Systems and Synthetic Biology · doi:10.1007/s11693-007-9005-9 · Cited by 201
Self-citationMolecular Systems Biology and Control
Sontag, E. D. (2005) · European Journal of Control · doi:10.3166/ejc.11.396-435 · Cited by 169
Self-citationParameter estimation and optimal experimental design
Banga, J. R., & Balsa-Canto, E. (2008) · Essays in Biochemistry · doi:10.1042/bse0450195 · Cited by 141
Tyukin, I., Prokhorov, D. V., & van Leeuwen, C. (2007) · IEEE Transactions on Automatic Control · doi:10.1109/tac.2007.904448 · Cited by 110
Stability and Stabilization of Systems with Time Delay. Limitations and Opportunities
Sipahi, R., Niculescu, S., Abdallah, C. T., Michiels, W., & Gu, K. (2010) · UNM’s Digital Repository (University of New Mexico) · Cited by 104
Ni, X. Y., Drengstig, T., & Ruoff, P. (2009) · Biophysical Journal · doi:10.1016/j.bpj.2009.06.030 · Cited by 97
DasGupta, B., Enciso, G., Sontag, E. D., & Zhang, Y. (2006) · Biosystems · doi:10.1016/j.biosystems.2006.08.001 · Cited by 89
Self-citationModel decomposition and reduction tools for large-scale networks in systems biology
Anderson, J., Chang, Y.-C., & Papachristodoulou, A. (2011) · Automatica · doi:10.1016/j.automatica.2011.03.010 · Cited by 90
Nonmonotone systems decomposable into monotone systems with negative feedback
Enciso, G., Smith, H. L., & Sontag, E. D. (2005) · Journal of Differential Equations · doi:10.1016/j.jde.2005.05.007 · Cited by 86
Self-citationSystems biology—an engineering perspective
Kremling, A., & Saez-Rodriguez, J. (2007) · Journal of Biotechnology · doi:10.1016/j.jbiotec.2007.02.009 · Cited by 76
Modular analysis of signal transduction networks
Sáez-Rodríguez, J., Kremling, A., Conzelmann, H., Bettenbrock, K., & Gilles, E. D. (2004) · IEEE Control Systems · doi:10.1109/mcs.2004.1316652 · Cited by 73
Translation-invariant monotone systems, and a global convergence result for enzymatic futile cycles
Angeli, D., & Sontag, E. D. (2006) · Nonlinear Analysis Real World Applications · doi:10.1016/j.nonrwa.2006.09.006 · Cited by 73
Self-citationChen, B., & Wu, C. (2010) · IEEE Transactions on Fuzzy Systems · doi:10.1109/tfuzz.2010.2070842 · Cited by 73
Monotone systems under positive feedback: multistability and a reduction theorem
Enciso, G., & Sontag, E. D. (2004) · Systems & Control Letters · doi:10.1016/j.sysconle.2004.08.003 · Cited by 70
Self-citationDoyle, F. J., & Stelling, J. (2006) · Journal of The Royal Society Interface · doi:10.1098/rsif.2006.0143 · Cited by 60
Sensitivity Measures for Oscillating Systems: Application to Mammalian Circadian Gene Network
Taylor, S. R., Gunawan, R., Petzold, L. R., & Doyle, F. J. (2008) · IEEE Transactions on Automatic Control · doi:10.1109/tac.2007.911364 · Cited by 62
Zhang, Q., Bhattacharya, S., Andersen, M. E., & Conolly, R. B. (2010) · Journal of Toxicology and Environmental Health Part B · doi:10.1080/10937404.2010.483943 · Cited by 61
A Formal Theory of Granularity
Keet, C. M., & Fitzgerald, B. F. (2008) · Cited by 56
Computational Strategies for a System-Level Understanding of Metabolism
Cazzaniga, P., Damiani, C., Besozzi, D., Colombo, R., Nobile, M. S., Gaglio, D., Pescini, D., Molinari, S., Mauri, G., Alberghina, L., et al. (2014) · Metabolites · doi:10.3390/metabo4041034 · Cited by 56
Signaling at the Golgi: sensing and controlling the membrane fluxes
Luini, A., & Parashuraman, S. (2016) · Current Opinion in Cell Biology · doi:10.1016/j.ceb.2016.01.014 · Cited by 48
Tapia, D., Jiménez, T., Zamora, C., Espinoza, J., Rizzo, R., González, A., Fuentes, D., Hernández, S., Cavieres, V. A., Soza, A., et al. (2019) · Nature Communications · doi:10.1038/s41467-019-08501-w · Cited by 47
van Riel, N. A. W., & Sontag, E. D. (2006) · Systems Biology · doi:10.1049/ip-syb:20050076 · Cited by 47
Self-citationThe Algebra of Open and Interconnected SystemsPreprint
Fong, B. (2016) · arXiv (Cornell University) · doi:10.4230/lipics.concur.2017.24 · Cited by 47
Multiscale model for the assessment of autonomic dysfunction in human endotoxemia
Foteinou, P. T., Calvano, S. E., Lowry, S. F., & Androulakis, I. P. (2010) · Physiological Genomics · doi:10.1152/physiolgenomics.00184.2009 · Cited by 45
On the Ribosomal Density that Maximizes Protein Translation Rate
Zarai, Y., Michael Margaliot, A., & Tuller, T. (2016) · PLoS ONE · doi:10.1371/journal.pone.0166481 · Cited by 43
Nonautonomous Dynamical Systems in the Life Sciences
Kloeden, P. E., & Pötzsche, C. (2013) · Lecture notes in mathematics · doi:10.1007/978-3-319-03080-7_1 · Cited by 46
Robustness, flexibility, and sensitivity in a multifunctional motor control model
Lyttle, D. N., Gill, J. P., Shaw, K. M., Thomas, P. J., & Chiel, H. J. (2016) · Biological Cybernetics · doi:10.1007/s00422-016-0704-8 · Cited by 42
Proximity of intracellular regulatory networks to monotone systems
Ma’ayan, A., Lipshtat, A., Iyengar, R., & Sontag, E. D. (2008) · IET Systems Biology · doi:10.1049/iet-syb:20070036 · Cited by 43
Self-citationExact control of genetic networks in a qualitative framework: The bistable switch example
Chaves, M., & Gouzé, J. (2011) · Automatica · doi:10.1016/j.automatica.2011.01.071 · Cited by 40
A systematic design method for robust synthetic biology to satisfy design specifications
Chen, B., & Wu, C. (2009) · BMC Systems Biology · doi:10.1186/1752-0509-3-66 · Cited by 40
The future of extracorporeal support
Cruz, D. N., Bellomo, R., Kellum, J. A., de Cal, M., & Ronco, C. (2008) · Critical Care Medicine · doi:10.1097/ccm.0b013e318168e4f6 · Cited by 37
A mathematical tool for exploring the dynamics of biological networks
Barbano, P. E., Spivak, M., Flajolet, M., Nairn, A. C., Greengard, P., & Greengard, L. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0709955104 · Cited by 37
Biology and Control Theory: Current Challenges
Queinnec, I., Tarbouriech, S., García, G., & Niculescu, S. (2007) · Lecture notes in control and information sciences · doi:10.1007/978-3-540-71988-5 · Cited by 34
Modular Analysis of Biological Networks
Kaltenbach, H., & Stelling, J. (2011) · Advances in experimental medicine and biology · doi:10.1007/978-1-4419-7210-1_1 · Cited by 33
Singularly Perturbed Monotone Systems and an Application to Double Phosphorylation Cycles
Wang, L., & Sontag, E. D. (2008) · Journal of Nonlinear Science · doi:10.1007/s00332-008-9021-2 · Cited by 30
Self-citationFinite-time adaptive stability of gene regulatory networks
Wu, L., Liu, K., Lü, J., & Gu, H. (2019) · Neurocomputing · doi:10.1016/j.neucom.2019.02.011 · Cited by 29
Oscillations in multi-stable monotone systems with slowly varying feedback
Gedeon, T., & Sontag, E. D. (2007) · Journal of Differential Equations · doi:10.1016/j.jde.2007.05.029 · Cited by 27
Self-citationEnhancing Comprehension of Ontologies and Conceptual Models Through Abstractions
Keet, C. M. (2007) · Lecture notes in computer science · doi:10.1007/978-3-540-74782-6_73 · Cited by 27
Singularly Perturbed Monotone Systems and an Application to Double Phosphorylation CyclesPreprint
Wang, L., & Sontag, E. D. (2007) · Cited by 27
Self-citationA Context Driven Architecture for Cognitive Radio Nodes
Balamuralidhar, P., & Prasad, R. (2008) · Wireless Personal Communications · doi:10.1007/s11277-008-9480-7 · Cited by 26
Inferring biomolecular interaction networks based on convex optimization
Han, S., Yoon, Y., & Cho, K. (2007) · Computational Biology and Chemistry · doi:10.1016/j.compbiolchem.2007.08.003 · Cited by 25
Modeling Physiologic Variability in Human Endotoxemia
Scheff, J. D., Mavroudis, P. D., Foteinou, P. T., Calvano, S. E., & Androulakis, I. P. (2012) · Critical Reviews in Biomedical Engineering · doi:10.1615/critrevbiomedeng.v40.i4.60 · Cited by 24
Inferring (Biological) Signal Transduction Networks via Transitive Reductions of Directed Graphs
Albert, R., DasGupta, B., Dondi, R., & Sontag, E. D. (2007) · Algorithmica · doi:10.1007/s00453-007-9055-0 · Cited by 24
Self-citation"Going back to our roots": second generation biocomputingPreprint
Timmis, J., Amos, M., Banzhaf, W., & Tyrrell, A. M. (2005) · arXiv (Cornell University) · doi:10.48550/arxiv.cs/0512071 · Cited by 23
High order sliding-mode dynamic control for chaotic intracellular calcium oscillations
Aguilar‐López, R., Martínez‐Guerra, R., Puebla, H., & Hernández-Suárez, R. (2008) · Nonlinear Analysis Real World Applications · doi:10.1016/j.nonrwa.2008.10.054 · Cited by 21
Robust Concentration and Frequency Control in Oscillatory Homeostats
Thorsen, K., Agafonov, O., Selstø, C. H., Jolma, I. W., Ni, X. Y., Drengstig, T., & Ruoff, P. (2014) · PLoS ONE · doi:10.1371/journal.pone.0107766 · Cited by 21
Selective pressures for and against genetic instability in cancer: a time-dependent problem
Komarova, N. L., Sadovsky, A. V., & Wan, F. Y. M. (2007) · Journal of The Royal Society Interface · doi:10.1098/rsif.2007.1054 · Cited by 21
Massonis, G., & Villaverde, A. F. (2020) · Symmetry · doi:10.3390/sym12030469 · Cited by 20
Optimal Control of HIV-Virus Dynamics
Radisavljević-Gajić, V. (2009) · Annals of Biomedical Engineering · doi:10.1007/s10439-009-9672-7 · Cited by 20
Control of Genetic Regulatory Networks: Opportunities and Challenges
Pe, W. (2013) · Acta Automatica Sinica · Cited by 18
Passivity-based Stability of Interconnection Structures
Sontag, E. D., & Arcak, M. (2007) · Lecture notes in control and information sciences · doi:10.1007/978-1-84800-155-8_14 · Cited by 18
Self-citationConstruction of genetic oscillators with interlocked feedback networks
Wang, R., Chen, L., & Aihara, K. (2006) · Journal of Theoretical Biology · doi:10.1016/j.jtbi.2006.03.015 · Cited by 18
Robust model matching design methodology for a stochastic synthetic gene network
Chen, B., Chang, C., Wang, Y., Wu, C.-H., & Lee, H.-C. (2011) · Mathematical Biosciences · doi:10.1016/j.mbs.2010.12.007 · Cited by 17
Control systems and coordination protocols of the secretory pathway
Luini, A., Mavelli, G., Jung, J. E., & Cancino, J. (2014) · F1000Prime Reports · doi:10.12703/p6-88 · Cited by 17
DasGupta, B., Enciso, G., Sontag, E. D., & Zhang, Y. (2006) · Lecture notes in computer science · doi:10.1007/11764298_23 · Cited by 17
Self-citationEnciso, G., & Sontag, E. D. (2008) · Journal of Biological Dynamics · doi:10.1080/17513750701793873 · Cited by 15
Self-citationExperimental ‘omics’ data in tree research: facing complexity
zu Castell, W., & Ernst, D. (2012) · Trees · doi:10.1007/s00468-012-0777-5 · Cited by 15
Demori, I., Giordano, G., Mucci, V., Losacco, S., Marinelli, L., Massobrio, P., Blanchini, F., & Burlando, B. (2022) · Journal of Computational Neuroscience · doi:10.1007/s10827-022-00826-8 · Cited by 14
Nonlinear Uncertain HIV-1 Model Controller by Using Control Lyapunov Function
Alazabi, F. A., & Zohdy, M. A. (2012) · International Journal of Modern Nonlinear Theory and Application · doi:10.4236/ijmnta.2012.12004 · Cited by 14
A Remark on Singular Perturbations of Strongly Monotone Systems
Wang, L., & Sontag, E. D. (2006) · IEEE Conference on Decision and Control (CDC) · doi:10.1109/cdc.2006.376929 · Cited by 14
Self-citationDynamics and Control of Synthetic Bio-molecular Networks
Vecchio, D. D., & Sontag, E. D. (2007) · Proceedings of the ... American Control Conference/Proceedings of the American Control Conference · doi:10.1109/acc.2007.4282302 · Cited by 12
Self-citationChen, B., & Chen, P. (2009) · Mathematical Biosciences · doi:10.1016/j.mbs.2009.09.004 · Cited by 12
Almost Global Convergence in Singular Perturbations of Strongly Monotone Systems
Wang, L., & Sontag, E. D. (2006) · Springer eBooks · doi:10.1007/3-540-34774-7_53 · Cited by 12
Self-citationFernández, R., Fontes, L. R., & Neves, E. J. (2009) · Journal of Statistical Physics · doi:10.1007/s10955-009-9819-9 · Cited by 9
Global Stability of Enzymatic Chains of Full Reversible Michaelis-Menten Reactions
Belgacem, I., & Gouzé, J. (2013) · Acta Biotheoretica · doi:10.1007/s10441-013-9195-3 · Cited by 10
Qualitative Stability of Nonlinear Networked Systems
Angulo, M. T., & Slotine, J.-J. E. (2016) · IEEE Transactions on Automatic Control · doi:10.1109/tac.2016.2617780 · Cited by 10
Multi-valued characteristics and Morse decompositions
Gedeon, T., & Hines, G. (2009) · Journal of Differential Equations · doi:10.1016/j.jde.2009.04.019 · Cited by 9
The role of feedback mechanisms in biological network models—A tutorial
Radde, N. E. (2011) · Asian Journal of Control · doi:10.1002/asjc.376 · Cited by 9
Molecular Systems Biology and Control: A Qualitative-Quantitative Approach
Sontag, E. D. (2006) · IEEE Conference on Decision and Control (CDC) · doi:10.1109/cdc.2005.1582507 · Cited by 9
Self-citationUsing Abstractions to Facilitate Management of Large ORM Models and Ontologies
Keet, C. M. (2005) · Lecture notes in computer science · doi:10.1007/11575863_80 · Cited by 8
Network inference via adaptive optimal design
Stigter, J. D., & Molenaar, J. (2012) · BMC Research Notes · doi:10.1186/1756-0500-5-518 · Cited by 8
Conradi, C., Flockerzi, D., & Raisch, J. (2007) · Proceedings of the ... American Control Conference/Proceedings of the American Control Conference · doi:10.1109/acc.2007.4282717 · Cited by 8
Understanding bistability in yeast glycolysis using general properties of metabolic pathways
Planqué, R., Bruggeman, F. J., Teusink, B., & Hulshof, J. (2014) · Mathematical Biosciences · doi:10.1016/j.mbs.2014.06.006 · Cited by 8
A note on Monotone Systems with Positive Translation Invariance
Angeli, D., & Sontag, E. D. (2006) · Mediterranean Conference on Control and Automation (MED) · doi:10.1109/med.2006.236127 · Cited by 7
Self-citationSystem and Control Theory Furthers the Understanding of Biological Signal Transduction
Bullinger, E., Findeisen, R., Kalamatianos, D., & Wellstead, P. E. (2007) · Springer eBooks · doi:10.1007/978-3-540-71988-5_6 · Cited by 6
Global Stability of Full Open Reversible Michaelis-Menten Reactions
Belgacem, I., & Gouzé, J. (2012) · IFAC Proceedings Volumes · doi:10.3182/20120710-4-sg-2026.00039 · Cited by 6
Model-based design approaches in drug discovery: A parallel to traditional engineering approaches
Schoeberl, B., Nielsen, U. B., & Paxson, R. (2006) · IBM Journal of Research and Development · doi:10.1147/rd.506.0645 · Cited by 6
A theoretic control approach in signal-controlled metabolic pathways
Garimella, R. V., Garimella, U., & Liu, W. (2007) · Mathematical Biosciences & Engineering · doi:10.3934/mbe.2007.4.471 · Cited by 6
New approach to the stability and control of reaction networks
Ali, M. (2015) · Spiral (Imperial College London) · doi:10.25560/34686 · Cited by 6
System Identification of mGluR-Dependent Long-Term Depression
Tambuyzer, T., Ahmed, T., Taylor, C. J., Berckmans, D., Balschun, D., & Aerts, J. (2012) · Neural Computation · doi:10.1162/neco_a_00408 · Cited by 5
Stability analysis and reduction of gene transcription models
Belgacem, I., & Gouzé, J. (2013) · IEEE Conference on Decision and Control (CDC) · doi:10.1109/cdc.2013.6760289 · Cited by 5
Modelling the self-tolerance mechanisms of T cells: An adaptive sliding mode control approach
Anelone, A. J. N., Orlov, Y. V., & Spurgeon, S. K. (2014) · UKACC International Conference on Control · doi:10.1109/control.2014.6915203 · Cited by 5
Dynamic mathematical modeling of cell-fractone interactions
Chyba, M., Mercier, F., Rader, J., Douet, V., Arikawa‐Hirasawa, E., Kwon, Y. C., Kodama, R., & 有川-平澤, 恵. (2011) · QIR (Kyushu University Institutional Repository) (Kyushu University) · Cited by 5
System theoretical investigation of human epidermal growth factor receptor-mediated signalling
Zhang, Y., Shankaran, H., Opresko, L. K., & Resat, H. (2008) · IET Systems Biology · doi:10.1049/iet-syb:20080116 · Cited by 5
New Results on Delay-Dependent Stability Analysis and Stabilization of Time-Delay Systems
Das, D. K. (2015) · Cited by 5
A global convergence result for strongly monotone systems with positive translation invariancePreprint
Angeli, D., & Sontag, E. D. (2006) · arXiv (Cornell University) · doi:10.48550/arxiv.math/0602005 · Cited by 5
Self-citationControl of negative feedback loops in genetic networks
Belgacem, I., Gouzé, J., & Edwards, R. (2020) · IEEE Conference on Decision and Control (CDC) · doi:10.1109/cdc42340.2020.9304088 · Cited by 4
Model reference control for SIRS models
Chow, S.-N., & Li, Y. (2009) · Discrete and Continuous Dynamical Systems · doi:10.3934/dcds.2009.24.675 · Cited by 4
Analysis and reduction of transcription translation coupled models for gene expression
Belgacem, I., & Gouzé, J. (2013) · IFAC Proceedings Volumes · doi:10.3182/20131216-3-in-2044.00012 · Cited by 5
A Top-Level Categorization of Types of Granularity
Keet, C. M. (2010) · IGI Global eBooks · doi:10.4018/978-1-60566-324-1.ch005 · Cited by 4
Reduction and Stability Analysis of a Transcription–Translation Model of RNA Polymerase
Belgacem, I., Casagranda, S., Grac, E., Ropers, D., & Gouzé, J. (2017) · Bulletin of Mathematical Biology · doi:10.1007/s11538-017-0372-4 · Cited by 4
Robust Stability of Positive Monotone Feedback Interconnections
Kao, C., & Khong, S. Z. (2018) · IEEE Transactions on Automatic Control · doi:10.1109/tac.2018.2822868 · Cited by 4
Prolegomena to a History of Robustness
Caianiello, S. (2018) · History, philosophy and theory of the life sciences · doi:10.1007/978-3-030-01198-7_2 · Cited by 4
Noise propagation in a class of metabolic networks
Borri, A., Palumbo, P. J., & Singh, A. (2017) · IEEE Conference on Decision and Control (CDC) · doi:10.1109/cdc.2017.8263705 · Cited by 4
Global Stability of Reversible Enzymatic Metabolic Chains
Ndiaye, I., & Gouzé, J. (2013) · Acta Biotheoretica · doi:10.1007/s10441-013-9171-y · Cited by 4
A New Approach to Modeling Morphogenesis Using Control Theory
Chyba, M., Kobayashi, M. H., Kwon, Y. C., Mercier, F., Rader, J., Tamura-Sato, A., & Telleschi, G. (2011) · São Paulo Journal of Mathematical Sciences · doi:10.11606/issn.2316-9028.v5i2p281-315 · Cited by 4
Metadata
- Authors
- Sontag, E. D.
- Affiliations
- Rutgers, The State University of New Jersey (US)
- Corresponding author
- Sontag, E.D.
- ORCID
- Sontag, E.D.
- Venue
- Systems Biology
- Published
- 2004-06-01
- Volume
- 1
- Issue
- 1
- Pages
- 9-18
- ISSN
- 1741-2471 (ISSN-L)
- 1741-248X
- OpenAlex
- W2107461460
- Cited by
- 171
- References
- 64
- Citations by year
- 2026: 2 · 2025: 2 · 2024: 1 · 2023: 1 · 2022: 2 · 2020: 5 · 2019: 3 · 2018: 4 · 2017: 4 · 2016: 11 · 2015: 5 · 2014: 11 · 2013: 14 · 2012: 8
- FWCI
- 1.19
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Systems Biology (publishedVersion)
- PubMed (publishedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gene Regulatory Network Analysis
- Physical Sciences › Engineering › Control and Systems Engineering › Control Systems and Identification
- Social Sciences › Arts and Humanities › History and Philosophy of Science › Philosophy of Biology and Scientific Explanation
- Keywords
- control theory, theoretical issues, biological control systems, interdisciplinary research
- MeSH terms
- Biomedical Engineering, Biotechnology, Feedback, Models, Biological, Systems Theory, United States, Biomimetics, Systems Biology
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
