On the analysis of complex biological supply chains: From process systems engineering to quantitative systems pharmacology

Rao, Rohit T.; Scherholz, Megerle L.; Hartmanshenn, Clara; Bae, Seul-A; Androulakis, Ioannis P.

doi:10.1016/j.compchemeng.2017.06.003

On the analysis of complex biological supply chains: From process systems engineering to quantitative systems pharmacology

Journal Article · Fri Dec 01 00:00:00 UTC 2017 · Computers and Chemical Engineering

DOI:https://doi.org/10.1016/j.compchemeng.2017.06.003· OSTI ID:1550125

Rao, Rohit T.; Scherholz, Megerle L.; Hartmanshenn, Clara; Bae, Seul-A; Androulakis, Ioannis P.

Not Available

View Accepted Manuscript (Publisher)

Sponsoring Organization:: USDOE

OSTI ID:: 1550125

Journal Information:: Computers and Chemical Engineering, Journal Name: Computers and Chemical Engineering Journal Issue: C Vol. 107; ISSN 0098-1354

Publisher:: ElsevierCopyright Statement

Country of Publication:: United Kingdom

Language:: English

References (139)

Quantitative systems pharmacology for shifting the drug discovery and development paradigm No authors listed Biopharmaceutics & Drug Disposition, Vol. 34, Issue 9 https://doi.org/10.1002/bdd.1870	journal	December 2013
Pharmacodynamics of glucose regulation by methylprednisolone. I. Adrenalectomized rats Jin, Jin Y.; Jusko, William J. Biopharmaceutics & Drug Disposition, Vol. 30, Issue 1 https://doi.org/10.1002/bdd.643	journal	January 2009
Kinetics of pharmacologic effects Levy, Gerhard Clinical Pharmacology & Therapeutics, Vol. 7, Issue 3 https://doi.org/10.1002/cpt196673362	journal	May 1966
Moving from Basic Toward Systems Pharmacodynamic Models Jusko, William J. Journal of Pharmaceutical Sciences, Vol. 102, Issue 9 https://doi.org/10.1002/jps.23590	journal	September 2013
Relationship Between Elimination Rate of Drugs and Rate of Decline of Their Pharmacologic Effects Levy, Gerhard Journal of Pharmaceutical Sciences, Vol. 53, Issue 3 https://doi.org/10.1002/jps.2600530325	journal	March 1964
Role of systems pharmacology in understanding drug adverse events: Role of systems pharmacology Berger, Seth I.; Iyengar, Ravi Wiley Interdisciplinary Reviews: Systems Biology and Medicine, Vol. 3, Issue 2 https://doi.org/10.1002/wsbm.114	journal	August 2010
Systems engineering meets quantitative systems pharmacology: from low-level targets to engaging the host defenses: Systems engineering meets quantitative systems pharmacology Androulakis, Ioannis P. Wiley Interdisciplinary Reviews: Systems Biology and Medicine, Vol. 7, Issue 3 https://doi.org/10.1002/wsbm.1294	journal	March 2015
Agent‐based models in translational systems biology An, Gary; Mi, Qi; Dutta‐Moscato, Joyeeta Wiley Interdisciplinary Reviews: Systems Biology and Medicine, Vol. 1, Issue 2 https://doi.org/10.1002/wsbm.45	journal	September 2009
Systems Biology and Inflammation Vodovotz, Yoram; An, Gary Methods in Molecular Biology https://doi.org/10.1007/978-1-60761-800-3_9	book	January 2010
Localized bacterial infection in a distributed model for tissue inflammation Lauffenburger, Douglas A.; Kennedy, Clinton R. Journal of Mathematical Biology, Vol. 16, Issue 2 https://doi.org/10.1007/BF00276054	journal	January 1983
Seasonal variation in peripheral blood leukocyte subsets and in serum interleukin-6, and soluble interleukin-2 and-6 receptor concentrations in normal volunteers Maes, M.; Stevens, W.; Scharpe, S. Experientia, Vol. 50, Issue 9 https://doi.org/10.1007/BF01956463	journal	September 1994
Daytime light intensity affects seasonal timing via changes in the nocturnal melatonin levels Kumar, Vinod; Rani, Sangeeta; Malik, Shalie Naturwissenschaften, Vol. 94, Issue 8 https://doi.org/10.1007/s00114-007-0243-1	journal	April 2007
Sleep and immune function Besedovsky, Luciana; Lange, Tanja; Born, Jan Pflügers Archiv - European Journal of Physiology, Vol. 463, Issue 1 https://doi.org/10.1007/s00424-011-1044-0	journal	November 2011
Translational applications of evaluating physiologic variability in human endotoxemia Scheff, Jeremy D.; Mavroudis, Panteleimon D.; Calvano, Steve E. Journal of Clinical Monitoring and Computing, Vol. 27, Issue 4 https://doi.org/10.1007/s10877-012-9418-1	journal	December 2012
Complex signals bioinformatics: evaluation of heart rate characteristics monitoring as a novel risk marker for neonatal sepsis Lake, Douglas E.; Fairchild, Karen D.; Moorman, J. Randall Journal of Clinical Monitoring and Computing, Vol. 28, Issue 4 https://doi.org/10.1007/s10877-013-9530-x	journal	November 2013
Modeling receptor/gene-mediated effects of corticosteroids on hepatic tyrosine aminotransferase dynamics in rats: dual regulation by endogenous and exogenous corticosteroids Hazra, Anasuya; Pyszczynski, Nancy; DuBois, Debra C. Journal of Pharmacokinetics and Pharmacodynamics, Vol. 34, Issue 5 https://doi.org/10.1007/s10928-007-9063-3	journal	June 2007
Applications of minimal physiologically-based pharmacokinetic models Cao, Yanguang; Jusko, William J. Journal of Pharmacokinetics and Pharmacodynamics, Vol. 39, Issue 6 https://doi.org/10.1007/s10928-012-9280-2	journal	November 2012
Sex related differences on valproic acid pharmacokinetics after oral single dose Ibarra, Manuel; Vázquez, Marta; Fagiolino, Pietro Journal of Pharmacokinetics and Pharmacodynamics, Vol. 40, Issue 4 https://doi.org/10.1007/s10928-013-9323-3	journal	June 2013
Perspectives on the history and scientific contributions of Gerhard Levy Fung, Ho-Leung; Jusko, William J. Journal of Pharmacokinetics and Pharmacodynamics, Vol. 42, Issue 5 https://doi.org/10.1007/s10928-015-9442-0	journal	September 2015
Physiologically-based pharmacokinetic models: approaches for enabling personalized medicine Hartmanshenn, Clara; Scherholz, Megerle; Androulakis, Ioannis P. Journal of Pharmacokinetics and Pharmacodynamics, Vol. 43, Issue 5 https://doi.org/10.1007/s10928-016-9492-y	journal	September 2016
In Silico Modeling of Non-Linear Drug Absorption for the P-gp Substrate Talinolol and of Consequences for the Resulting Pharmacodynamic Effect Tubic, Marija; Wagner, Daniel; Spahn-Langguth, Hilde Pharmaceutical Research, Vol. 23, Issue 8 https://doi.org/10.1007/s11095-006-9020-7	journal	July 2006
Systems Pharmacology: Bridging Systems Biology and Pharmacokinetics-Pharmacodynamics (PKPD) in Drug Discovery and Development van der Graaf, Piet H.; Benson, Neil Pharmaceutical Research, Vol. 28, Issue 7 https://doi.org/10.1007/s11095-011-0467-9	journal	May 2011
A Physiologically Based Pharmacokinetic Model of the Minipig: Data Compilation and Model Implementation Suenderhauf, Claudia; Parrott, Neil Pharmaceutical Research, Vol. 30, Issue 1 https://doi.org/10.1007/s11095-012-0911-5	journal	November 2012
Quantitative Systems Pharmacology: A Framework for Context Androulakis, Ioannis P. Current Pharmacology Reports, Vol. 2, Issue 3 https://doi.org/10.1007/s40495-016-0058-x	journal	April 2016
Top-down, Bottom-up and Middle-out Strategies for Drug Cardiac Safety Assessment via Modeling and Simulations Tylutki, Zofia; Polak, Sebastian; Wiśniowska, Barbara Current Pharmacology Reports, Vol. 2, Issue 4 https://doi.org/10.1007/s40495-016-0060-3	journal	April 2016
Analysis of a lumped model for tissue inflammation dynamics Lauffenburger, Douglas A.; Kennedy, Clinton R. Mathematical Biosciences, Vol. 53, Issue 3-4 https://doi.org/10.1016/0025-5564(81)90018-3	journal	April 1981
Oscillatory behavior in enzymatic control processes Goodwin, Brian C. Advances in Enzyme Regulation, Vol. 3 https://doi.org/10.1016/0065-2571(65)90067-1	journal	January 1965
Prevention of chronic disease in the 21st century: elimination of the leading preventable causes of premature death and disability in the USA Bauer, Ursula E.; Briss, Peter A.; Goodman, Richard A. The Lancet, Vol. 384, Issue 9937 https://doi.org/10.1016/S0140-6736(14)60648-6	journal	July 2014
Autoinhibition with Transcriptional Delay Lewis, Julian Current Biology, Vol. 13, Issue 16 https://doi.org/10.1016/S0960-9822(03)00534-7	journal	August 2003
The Metabolic Syndrome: Inflammation, Diabetes Mellitus, and Cardiovascular Disease Haffner, Steven M. The American Journal of Cardiology, Vol. 97, Issue 2 https://doi.org/10.1016/j.amjcard.2005.11.010	journal	January 2006
Cellular energetic metabolism in sepsis: The need for a systems approach Carré, Jane E.; Singer, Mervyn Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1777, Issue 7-8 https://doi.org/10.1016/j.bbabio.2008.04.024	journal	July 2008
Is Alzheimer's disease a systemic disease? Morris, Jill K.; Honea, Robyn A.; Vidoni, Eric D. Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease, Vol. 1842, Issue 9 https://doi.org/10.1016/j.bbadis.2014.04.012	journal	September 2014
Brain-immune communication pathways Quan, Ning; Banks, William A. Brain, Behavior, and Immunity, Vol. 21, Issue 6 https://doi.org/10.1016/j.bbi.2007.05.005	journal	August 2007
Process systems engineering: From Solvay to modern bio- and nanotechnology. Stephanopoulos, George; Reklaitis, Gintaras V. Chemical Engineering Science, Vol. 66, Issue 19 https://doi.org/10.1016/j.ces.2011.05.049	journal	October 2011
Time-Restricted Feeding without Reducing Caloric Intake Prevents Metabolic Diseases in Mice Fed a High-Fat Diet Hatori, Megumi; Vollmers, Christopher; Zarrinpar, Amir Cell Metabolism, Vol. 15, Issue 6 https://doi.org/10.1016/j.cmet.2012.04.019	journal	June 2012
Perspectives for process systems engineering—Personal views from academia and industry Klatt, Karsten-Ulrich; Marquardt, Wolfgang Computers & Chemical Engineering, Vol. 33, Issue 3 https://doi.org/10.1016/j.compchemeng.2008.09.002	journal	March 2009
Networks, biology and systems engineering: A case study in inflammation Foteinou, P. T.; Yang, E.; Androulakis, I. P. Computers & Chemical Engineering, Vol. 33, Issue 12 https://doi.org/10.1016/j.compchemeng.2009.06.027	journal	December 2009
First principles pharmacokinetic modeling: A quantitative study on Cyclosporin Mošat’, Andrej; Lueshen, Eric; Heitzig, Martina Computers & Chemical Engineering, Vol. 54 https://doi.org/10.1016/j.compchemeng.2013.03.026	journal	July 2013
A computer-aided framework for development, identification and management of physiologically-based pharmacokinetic models Heitzig, Martina; Linninger, Andreas A.; Sin, Gürkan Computers & Chemical Engineering, Vol. 71 https://doi.org/10.1016/j.compchemeng.2014.07.016	journal	December 2014
A chemical engineer's perspective on health and disease Androulakis, Ioannis P. Computers & Chemical Engineering, Vol. 71 https://doi.org/10.1016/j.compchemeng.2014.09.007	journal	December 2014
Definition and validation of a patient-individualized physiologically-based pharmacokinetic model Abbiati, Roberto Andrea; Lamberti, Gaetano; Grassi, Mario Computers & Chemical Engineering, Vol. 84 https://doi.org/10.1016/j.compchemeng.2015.09.018	journal	January 2016
A modeling tool for the personalization of pharmacokinetic predictions Abbiati, Roberto Andrea; Manca, Davide Computers & Chemical Engineering, Vol. 91 https://doi.org/10.1016/j.compchemeng.2016.03.008	journal	August 2016
Disease specific modeling: Simulation of the pharmacokinetics of meloxicam and ibuprofen in disease state vs. healthy conditions Almukainzi, May; Jamali, Fakhreddin; Aghazadeh-Habashi, Ali European Journal of Pharmaceutics and Biopharmaceutics, Vol. 100 https://doi.org/10.1016/j.ejpb.2015.12.004	journal	March 2016
Luminothérapie et épisodes dépressifs saisonniers du trouble bipolaire Geoffroy, P. A.; Fovet, T.; Micoulaud-Franchi, J. -A. L'Encéphale, Vol. 41, Issue 6 https://doi.org/10.1016/j.encep.2015.09.003	journal	December 2015
Seasonal immune function and sickness responses Nelson, Randy J. Trends in Immunology, Vol. 25, Issue 4 https://doi.org/10.1016/j.it.2004.02.001	journal	April 2004
A multiscale modeling approach to inflammation: A case study in human endotoxemia Scheff, Jeremy D.; Mavroudis, Panteleimon D.; Foteinou, Panagiota T. Journal of Computational Physics, Vol. 244 https://doi.org/10.1016/j.jcp.2012.09.024	journal	July 2013
Heart rate dynamics preceding hemorrhage in the intensive care unit Moss, Travis J.; Clark, Matthew T.; Lake, Douglas E. Journal of Electrocardiology, Vol. 48, Issue 6 https://doi.org/10.1016/j.jelectrocard.2015.08.007	journal	November 2015
Applications of the pharmacokinetic/pharmacodynamic (PK/PD) analysis of antimicrobial agents Asín-Prieto, Eduardo; Rodríguez-Gascón, Alicia; Isla, Arantxazu Journal of Infection and Chemotherapy, Vol. 21, Issue 5 https://doi.org/10.1016/j.jiac.2015.02.001	journal	May 2015
The dynamics of acute inflammation Kumar, Rukmini; Clermont, Gilles; Vodovotz, Yoram Journal of Theoretical Biology, Vol. 230, Issue 2 https://doi.org/10.1016/j.jtbi.2004.04.044	journal	September 2004
Modeling the influence of circadian rhythms on the acute inflammatory response Scheff, Jeremy D.; Calvano, Steve E.; Lowry, Stephen F. Journal of Theoretical Biology, Vol. 264, Issue 3 https://doi.org/10.1016/j.jtbi.2010.03.026	journal	June 2010
Modeling endotoxin-induced systemic inflammation using an indirect response approach Foteinou, P. T.; Calvano, S. E.; Lowry, S. F. Mathematical Biosciences, Vol. 217, Issue 1 https://doi.org/10.1016/j.mbs.2008.09.003	journal	January 2009
Circadian characteristics of permissive and suppressive effects of cortisol and their role in homeostasis and the acute inflammatory response Mavroudis, Panteleimon D.; Corbett, Siobhan A.; Calvano, Steven E. Mathematical Biosciences, Vol. 260 https://doi.org/10.1016/j.mbs.2014.10.006	journal	February 2015
Genetics and the placebo effect: the placebome Hall, Kathryn T.; Loscalzo, Joseph; Kaptchuk, Ted J. Trends in Molecular Medicine, Vol. 21, Issue 5 https://doi.org/10.1016/j.molmed.2015.02.009	journal	May 2015
Artificial Neural Networks, and Evolutionary Algorithms as a systems biology approach to a data-base on fetal growth restriction Street, Maria E.; Buscema, Massimo; Smerieri, Arianna Progress in Biophysics and Molecular Biology, Vol. 113, Issue 3 https://doi.org/10.1016/j.pbiomolbio.2013.06.003	journal	December 2013
Comparison and evaluation of pharmacokinetics of PFOA and PFOS in the adult rat using a physiologically based pharmacokinetic model Loccisano, Anne E.; Campbell, Jerry L.; Butenhoff, John L. Reproductive Toxicology, Vol. 33, Issue 4 https://doi.org/10.1016/j.reprotox.2011.04.006	journal	July 2012
Diurnal and twenty-four hour patterning of human diseases: acute and chronic common and uncommon medical conditions Smolensky, Michael H.; Portaluppi, Francesco; Manfredini, Roberto Sleep Medicine Reviews, Vol. 21 https://doi.org/10.1016/j.smrv.2014.06.005	journal	June 2015
Application of physiologically-based pharmacokinetic modeling to explore the role of kidney transporters in renal reabsorption of perfluorooctanoic acid in the rat Worley, Rachel Rogers; Fisher, Jeffrey Toxicology and Applied Pharmacology, Vol. 289, Issue 3 https://doi.org/10.1016/j.taap.2015.10.017	journal	December 2015
Seasonal photoperiodism in vertebrates: from coincidence to amplitude Hazlerigg, David G.; Wagner, Gabriela C. Trends in Endocrinology & Metabolism, Vol. 17, Issue 3 https://doi.org/10.1016/j.tem.2006.02.004	journal	April 2006
Psychobiological allostasis: resistance, resilience and vulnerability Karatsoreos, Ilia N.; McEwen, Bruce S. Trends in Cognitive Sciences, Vol. 15, Issue 12 https://doi.org/10.1016/j.tics.2011.10.005	journal	December 2011
Mechanism-based pharmacokinetic-pharmacodynamic (PK-PD) modeling in translational drug research Danhof, M.; Delange, E.; Dellapasqua, O. Trends in Pharmacological Sciences, Vol. 29, Issue 4 https://doi.org/10.1016/j.tips.2008.01.007	journal	April 2008
Logic-Based Models for the Analysis of Cell Signaling Networks Morris, Melody K.; Saez-Rodriguez, Julio; Sorger, Peter K. Biochemistry, Vol. 49, Issue 15 https://doi.org/10.1021/bi902202q	journal	April 2010
In Silico Modeling for the Nonlinear Absorption Kinetics of UK-343,664: A P-gp and CYP3A4 Substrate Abuasal, Bilal S.; Bolger, Michael B.; Walker, Don K. Molecular Pharmaceutics, Vol. 9, Issue 3 https://doi.org/10.1021/mp200275j	journal	February 2012
Why do anti-inflammatory therapies fail to improve insulin sensitivity? Gao, Zhan-guo; Ye, Jian-ping Acta Pharmacologica Sinica, Vol. 33, Issue 2 https://doi.org/10.1038/aps.2011.131	journal	October 2011
Physiologic indirect response models characterize diverse types of pharmacodynamic effects Jusko, William J.; Ko, Hui C. Clinical Pharmacology and Therapeutics, Vol. 56, Issue 4 https://doi.org/10.1038/clpt.1994.155	journal	October 1994
Systems Pharmacology for Drug Discovery and Development: Paradigm Shift or Flash in the Pan? Vicini, P.; van der Graaf, P. H. Clinical Pharmacology & Therapeutics, Vol. 93, Issue 5 https://doi.org/10.1038/clpt.2013.40	journal	May 2013
Inflammation and cancer Coussens, Lisa M.; Werb, Zena Nature, Vol. 420, Issue 6917 https://doi.org/10.1038/nature01322	journal	December 2002
Widespread seasonal gene expression reveals annual differences in human immunity and physiology Dopico, Xaquin Castro; Evangelou, Marina; Ferreira, Ricardo C. Nature Communications, Vol. 6, Issue 1 https://doi.org/10.1038/ncomms8000	journal	May 2015
Instability of Hes7 protein is crucial for the somite segmentation clock Hirata, Hiromi; Bessho, Yasumasa; Kokubu, Hiroshi Nature Genetics, Vol. 36, Issue 7 https://doi.org/10.1038/ng1372	journal	May 2004
Stress and disorders of the stress system Chrousos, George P. Nature Reviews Endocrinology, Vol. 5, Issue 7 https://doi.org/10.1038/nrendo.2009.106	journal	June 2009
Effects of poor and short sleep on glucose metabolism and obesity risk Spiegel, Karine; Tasali, Esra; Leproult, Rachel Nature Reviews Endocrinology, Vol. 5, Issue 5 https://doi.org/10.1038/nrendo.2009.23	journal	May 2009
Circadian control of the immune system Scheiermann, Christoph; Kunisaki, Yuya; Frenette, Paul S. Nature Reviews Immunology, Vol. 13, Issue 3 https://doi.org/10.1038/nri3386	journal	February 2013
Deciphering the mechanism underlying late-onset Alzheimer disease Krstic, Dimitrije; Knuesel, Irene Nature Reviews Neurology, Vol. 9, Issue 1 https://doi.org/10.1038/nrneurol.2012.236	journal	November 2012
The Path to Personalized Medicine Hamburg, Margaret A.; Collins, Francis S. New England Journal of Medicine, Vol. 363, Issue 4 https://doi.org/10.1056/NEJMp1006304	journal	July 2010
Physiological significance of a peripheral tissue circadian clock Lamia, K. A.; Storch, K. -F.; Weitz, C. J. Proceedings of the National Academy of Sciences, Vol. 105, Issue 39 https://doi.org/10.1073/pnas.0806717105	journal	September 2008
Time of feeding and the intrinsic circadian clock drive rhythms in hepatic gene expression Vollmers, Christopher; Gill, Shubhroz; DiTacchio, Luciano Proceedings of the National Academy of Sciences, Vol. 106, Issue 50 https://doi.org/10.1073/pnas.0909591106	journal	November 2009
Fear of terror and inflammation ignite heart health decline von Känel, Roland Proceedings of the National Academy of Sciences, Vol. 112, Issue 5 https://doi.org/10.1073/pnas.1424405112	journal	January 2015
Myeloid differentiation architecture of leukocyte transcriptome dynamics in perceived social isolation Cole, Steven W.; Capitanio, John P.; Chun, Katie Proceedings of the National Academy of Sciences, Vol. 112, Issue 49 https://doi.org/10.1073/pnas.1514249112	journal	November 2015
The Evolution of an Inflammatory Response Lowry, Stephen F. Surgical Infections, Vol. 10, Issue 5 https://doi.org/10.1089/sur.2009.018	journal	October 2009
Enhanced efficacy of single-dose versus multi-dose azithromycin regimens in preclinical infection models Girard, D.; Finegan, S. M.; Dunne, M. W. Journal of Antimicrobial Chemotherapy, Vol. 56, Issue 2 https://doi.org/10.1093/jac/dki241	journal	July 2005
What's in season for rheumatoid arthritis patients? Seasonal fluctuations in disease activity Iikuni, N.; Nakajima, A.; Inoue, E. Rheumatology, Vol. 46, Issue 5 https://doi.org/10.1093/rheumatology/kel414	journal	March 2007
Is Cancer a Systematic Disease? Meyer, Willy Annals of Surgery, Vol. 93, Issue 1 https://doi.org/10.1097/00000658-193101000-00007	journal	January 1931
Human Endotoxemia: a Model for Mechanistic Insight and Therapeutic Targeting Lowry, Stephen F. Shock, Vol. 24, Issue Supplement 1 https://doi.org/10.1097/01.shk.0000191340.23907.a1	journal	January 2005
A Physiological Model for Autonomic Heart Rate Regulation in Human Endotoxemia Foteinou, Panagiota T.; Calvano, Steve E.; Lowry, Stephen F. Shock, Vol. 35, Issue 3 https://doi.org/10.1097/SHK.0b013e318200032b	journal	January 2011
Daily and seasonal adaptation of the circadian clock requires plasticity of the SCN neuronal network: Plasticity of the SCN neuronal network Meijer, Johanna H.; Michel, Stephan; VanderLeest, Henk T. European Journal of Neuroscience, Vol. 32, Issue 12 https://doi.org/10.1111/j.1460-9568.2010.07522.x	journal	December 2010
Understanding biological timing using mechanistic and black-box models: Minireview Dalchau, Neil New Phytologist, Vol. 193, Issue 4 https://doi.org/10.1111/j.1469-8137.2011.04004.x	journal	December 2011
The Hill equation: a review of its capabilities in pharmacological modelling Goutelle, Sylvain; Maurin, Michel; Rougier, Florent Fundamental & Clinical Pharmacology, Vol. 22, Issue 6 https://doi.org/10.1111/j.1472-8206.2008.00633.x	journal	December 2008
Commonality in chronic inflammatory diseases: periodontitis, diabetes, and coronary artery disease Southerland, Janet H.; Taylor, George W.; Moss, Kevin Periodontology 2000, Vol. 40, Issue 1 https://doi.org/10.1111/j.1600-0757.2005.00138.x	journal	February 2006
Translational Potential of Systems-Based Models of Inflammation Foteinou, P. T.; Calvano, S. E.; Lowry, S. F. Clinical and Translational Science, Vol. 2, Issue 1 https://doi.org/10.1111/j.1752-8062.2008.00051.x	journal	February 2009
Breast cancer as a systemic disease: a view of metastasis Redig, A. J.; McAllister, S. S. Journal of Internal Medicine, Vol. 274, Issue 2 https://doi.org/10.1111/joim.12084	journal	July 2013
Modeling of Corticosteroid Pharmacogenomics in Rat Liver Using Gene Microarrays Jin, Jin Y.; Almon, Richard R.; DuBois, Debra C. Journal of Pharmacology and Experimental Therapeutics, Vol. 307, Issue 1 https://doi.org/10.1124/jpet.103.053256	journal	June 2003
Mechanistic Modeling of the Effects of Glucocorticoids and Circadian Rhythms on Adipokine Expression Sukumaran, Siddharth; Jusko, William J.; DuBois, Debra C. Journal of Pharmacology and Experimental Therapeutics, Vol. 337, Issue 3 https://doi.org/10.1124/jpet.111.179960	journal	March 2011
Expectation and Dopamine Release: Mechanism of the Placebo Effect in Parkinson's Disease de la Fuente-Fernandez, R. Science, Vol. 293, Issue 5532 https://doi.org/10.1126/science.1060937	journal	August 2001
Reverse Engineering of Biological Complexity Csete, M. E. Science, Vol. 295, Issue 5560 https://doi.org/10.1126/science.1069981	journal	March 2002
Obesity and Metabolic Syndrome in Circadian Clock Mutant Mice Turek, F. W. Science, Vol. 308, Issue 5724 https://doi.org/10.1126/science.1108750	journal	May 2005
Anti-Inflammatory Therapy in Chronic Disease: Challenges and Opportunities Tabas, I.; Glass, C. K. Science, Vol. 339, Issue 6116 https://doi.org/10.1126/science.1230720	journal	January 2013
Merging Systems Biology with Pharmacodynamics Iyengar, R.; Zhao, S.; Chung, S. -W. Science Translational Medicine, Vol. 4, Issue 126 https://doi.org/10.1126/scitranslmed.3003563	journal	March 2012
Pharmacokinetic/Pharmacodynamic (PK/PD) Indices of Antibiotics Predicted by a Semimechanistic PKPD Model: a Step toward Model-Based Dose Optimization Nielsen, Elisabet I.; Cars, Otto; Friberg, Lena E. Antimicrobial Agents and Chemotherapy, Vol. 55, Issue 10 https://doi.org/10.1128/AAC.00182-11	journal	August 2011
Seasonal variation in coronary heart disease in Scotland. Douglas, A. S.; Dunnigan, M. G.; Allan, T. M. Journal of Epidemiology & Community Health, Vol. 49, Issue 6 https://doi.org/10.1136/jech.49.6.575	journal	December 1995
Mechanism-Based Pharmacokinetic-Pharmacodynamic Modeling: Biophase Distribution, Receptor Theory, and Dynamical Systems Analysis Danhof, Meindert; de Jongh, Joost; De Lange, Elizabeth C. M. Annual Review of Pharmacology and Toxicology, Vol. 47, Issue 1 https://doi.org/10.1146/annurev.pharmtox.47.120505.105154	journal	February 2007
Mathematical modeling of the circadian dynamics of the neuroendocrine-immune network in experimentally induced arthritis Rao, R.; DuBois, D.; Almon, R. American Journal of Physiology-Endocrinology and Metabolism, Vol. 311, Issue 2 https://doi.org/10.1152/ajpendo.00006.2016	journal	August 2016
Entrainment of peripheral clock genes by cortisol Mavroudis, Panteleimon D.; Scheff, Jeremy D.; Calvano, Steve E. Physiological Genomics, Vol. 44, Issue 11 https://doi.org/10.1152/physiolgenomics.00001.2012	journal	June 2012
The role of the hypothalamic-pituitary-adrenal axis in modulating seasonal changes in immunity Pierre, Kamau; Schlesinger, Naomi; Androulakis, Ioannis P. Physiological Genomics, Vol. 48, Issue 10 https://doi.org/10.1152/physiolgenomics.00006.2016	journal	October 2016
Mathematical modeling of light-mediated HPA axis activity and downstream implications on the entrainment of peripheral clock genes Mavroudis, Panteleimon D.; Corbett, Siobhan A.; Calvano, Steven E. Physiological Genomics, Vol. 46, Issue 20 https://doi.org/10.1152/physiolgenomics.00026.2014	journal	October 2014
Modeling autonomic regulation of cardiac function and heart rate variability in human endotoxemia Scheff, Jeremy D.; Mavroudis, Panteleimon D.; Calvano, Steven E. Physiological Genomics, Vol. 43, Issue 16 https://doi.org/10.1152/physiolgenomics.00040.2011	journal	August 2011
Beyond Obesity and Lifestyle: A Review of 21st Century Chronic Disease Determinants Egger, Garry; Dixon, John BioMed Research International, Vol. 2014 https://doi.org/10.1155/2014/731685	journal	January 2014
Cancer Inhibition through Circadian Reprogramming of Tumor Transcriptome with Meal Timing Li, Xiao-Mei; Delaunay, Franck; Dulong, Sandrine Cancer Research, Vol. 70, Issue 8 https://doi.org/10.1158/0008-5472.CAN-09-4235	journal	April 2010
Comparing Signaling Networks between Normal and Transformed Hepatocytes Using Discrete Logical Models Saez-Rodriguez, Julio; Alexopoulos, Leonidas G.; Zhang, MingSheng Cancer Research, Vol. 71, Issue 16 https://doi.org/10.1158/0008-5472.CAN-10-4453	journal	July 2011
Systems Biology of Circadian-Immune Interactions Mavroudis, P. D.; Scheff, J. D.; Calvano, S. E. Journal of Innate Immunity, Vol. 5, Issue 2 https://doi.org/10.1159/000342427	journal	January 2013
Circadian variation of transient myocardial ischemia in patients with coronary artery disease. Rocco, M. B.; Barry, J.; Campbell, S. Circulation, Vol. 75, Issue 2 https://doi.org/10.1161/01.CIR.75.2.395	journal	February 1987
Simulation of Day-Length Encoding in the SCN: From Single-Cell to Tissue-Level Organization Rohling, Jos; Wolters, Lex; Meijer, Johanna H. Journal of Biological Rhythms, Vol. 21, Issue 4 https://doi.org/10.1177/0748730406290317	journal	August 2006
Claude Bernard and the Constancy of the Internal Environment Gross, Charles G. The Neuroscientist, Vol. 4, Issue 5 https://doi.org/10.1177/107385849800400520	journal	September 1998
Using physiologically-based pharmacokinetic-guided “body-on-a-chip” systems to predict mammalian response to drug and chemical exposure Sung, Jong Hwan; Srinivasan, Balaji; Esch, Mandy Brigitte Experimental Biology and Medicine, Vol. 239, Issue 9 https://doi.org/10.1177/1535370214529397	journal	June 2014
Time-restricted feeding and the realignment of biological rhythms: translational opportunities and challenges Sunderram, Jag; Sofou, Stavroula; Kamisoglu, Kubra Journal of Translational Medicine, Vol. 12, Issue 1 https://doi.org/10.1186/1479-5876-12-79	journal	January 2014
Models in biology: ‘accurate descriptions of our pathetic thinking’ Gunawardena, Jeremy BMC Biology, Vol. 12, Issue 1 https://doi.org/10.1186/1741-7007-12-29	journal	April 2014
Systemic immune challenges trigger and drive Alzheimer-like neuropathology in mice Krstic, Dimitrije; Madhusudan, Amrita; Doehner, Jana Journal of Neuroinflammation, Vol. 9, Issue 1 https://doi.org/10.1186/1742-2094-9-151	journal	July 2012
Chronic inflammation role in the obesity-diabetes association: a case-cohort study Luft, Vivian C.; Schmidt, Maria I.; Pankow, James S. Diabetology & Metabolic Syndrome, Vol. 5, Issue 1 https://doi.org/10.1186/1758-5996-5-31	journal	June 2013
Challenges for modeling and interpreting the complex biology of severe injury and inflammation Lowry, Stephen F.; Calvano, Steve E. Journal of Leukocyte Biology, Vol. 83, Issue 3 https://doi.org/10.1189/jlb.0607377	journal	November 2007
Major Depression Is Associated with Significant Diurnal Elevations in Plasma Interleukin-6 Levels, a Shift of Its Circadian Rhythm, and Loss of Physiological Complexity in Its Secretion: Clinical Implications Alesci, Salvatore; Martinez, Pedro E.; Kelkar, Sujata The Journal of Clinical Endocrinology & Metabolism, Vol. 90, Issue 5 https://doi.org/10.1210/jc.2004-1667	journal	May 2005
Inflammatory Mechanisms: The Molecular Basis of Inflammation and Disease Libby, Peter Nutrition Reviews, Vol. 65, Issue 12 https://doi.org/10.1301/nr.2007.dec.S140-S146	journal	December 2007
From Inverse Problems in Mathematical Physiology to Quantitative Differential Diagnoses Zenker, Sven; Rubin, Jonathan; Clermont, Gilles PLoS Computational Biology, Vol. 3, Issue 11 https://doi.org/10.1371/journal.pcbi.0030204	journal	November 2007
Modeling Cortisol Dynamics in the Neuro-endocrine Axis Distinguishes Normal, Depression, and Post-traumatic Stress Disorder (PTSD) in Humans Sriram, K.; Rodriguez-Fernandez, Maria; Doyle, Francis J. PLoS Computational Biology, Vol. 8, Issue 2 https://doi.org/10.1371/journal.pcbi.1002379	journal	February 2012
In Silico Simulation of Corticosteroids Effect on an NFkB- Dependent Physicochemical Model of Systemic Inflammation Foteinou, Panagiota T.; Calvano, Steve E.; Lowry, Stephen F. PLoS ONE, Vol. 4, Issue 3 https://doi.org/10.1371/journal.pone.0004706	journal	March 2009
Nest Making and Oxytocin Comparably Promote Wound Healing in Isolation Reared Rats Vitalo, Antonia; Fricchione, Jonathan; Casali, Monica PLoS ONE, Vol. 4, Issue 5 https://doi.org/10.1371/journal.pone.0005523	journal	May 2009
Agent-Based Modeling of Endotoxin-Induced Acute Inflammatory Response in Human Blood Leukocytes Dong, Xu; Foteinou, Panagiota T.; Calvano, Steven E. PLoS ONE, Vol. 5, Issue 2 https://doi.org/10.1371/journal.pone.0009249	journal	February 2010
Computational Identification of Transcriptional Regulators in Human Endotoxemia Nguyen, Tung T.; Foteinou, Panagiota T.; Calvano, Steven E. PLoS ONE, Vol. 6, Issue 5 https://doi.org/10.1371/journal.pone.0018889	journal	May 2011
Circadian Desynchrony Promotes Metabolic Disruption in a Mouse Model of Shiftwork Barclay, Johanna L.; Husse, Jana; Bode, Brid PLoS ONE, Vol. 7, Issue 5 https://doi.org/10.1371/journal.pone.0037150	journal	May 2012
Meal Time Shift Disturbs Circadian Rhythmicity along with Metabolic and Behavioral Alterations in Mice Yoon, Ji-Ae; Han, Dong-Hee; Noh, Jong-Yun PLoS ONE, Vol. 7, Issue 8 https://doi.org/10.1371/journal.pone.0044053	journal	August 2012
An Agent-Based Model of Cellular Dynamics and Circadian Variability in Human Endotoxemia Nguyen, Tung T.; Calvano, Steve E.; Lowry, Stephen F. PLoS ONE, Vol. 8, Issue 1 https://doi.org/10.1371/journal.pone.0055550	journal	January 2013
Meta-Modeling of Methylprednisolone Effects on Glucose Regulation in Rats Fang, Jing; Sukumaran, Siddharth; DuBois, Debra C. PLoS ONE, Vol. 8, Issue 12 https://doi.org/10.1371/journal.pone.0081679	journal	December 2013
Disruption of Peripheral Circadian Timekeeping in a Mouse Model of Huntington's Disease and Its Restoration by Temporally Scheduled Feeding Maywood, E. S.; Fraenkel, E.; McAllister, C. J. Journal of Neuroscience, Vol. 30, Issue 30 https://doi.org/10.1523/JNEUROSCI.1694-10.2010	journal	July 2010
Modeling Physiologic Variability in Human Endotoxemia Scheff, Jeremy D.; Mavroudis, Panteleimon D.; Foteinou, Panagiota T. Critical Reviews in Biomedical Engineering, Vol. 40, Issue 4 https://doi.org/10.1615/CritRevBiomedEng.v40.i4.60	journal	January 2012
Circadian Rhythms, Melatonin and Depression A. Quera Salva, M.; Hartley, S.; Barbot, F. Current Pharmaceutical Design, Vol. 17, Issue 15 https://doi.org/10.2174/138161211796197188	journal	May 2011
Mechanisms of inflammation: the good, the bad and the ugly Laroux, F. , Stephen Frontiers in Bioscience, Vol. 9, Issue 1-3 https://doi.org/10.2741/1468	journal	January 2004
Translational Systems Approaches to the Biology of Inflammation and Healing Vodovotz, Yoram; Constantine, Gregory; Faeder, James Immunopharmacology and Immunotoxicology, Vol. 32, Issue 2 https://doi.org/10.3109/08923970903369867	journal	February 2010
A Systems Engineering Perspective on Homeostasis and Disease Vodovotz, Yoram; An, Gary; Androulakis, Ioannis P. Frontiers in Bioengineering and Biotechnology, Vol. 1 https://doi.org/10.3389/fbioe.2013.00006	journal	January 2013
Virtual Systems Pharmacology (ViSP) software for simulation from mechanistic systems-level models Ermakov, Sergey; Forster, Peter; Pagidala, Jyotsna Frontiers in Pharmacology, Vol. 5 https://doi.org/10.3389/fphar.2014.00232	journal	October 2014
Quantitative Systems Pharmacology can reduce attrition and improve productivity in pharmaceutical research and development Leil, Tarek A.; Bertz, Richard Frontiers in Pharmacology, Vol. 5 https://doi.org/10.3389/fphar.2014.00247	journal	November 2014
Linking Inflammation, Cardiorespiratory Variability, and Neural Control in Acute Inflammation via Computational Modeling Dick, Thomas E.; Molkov, Yaroslav I.; Nieman, Gary Frontiers in Physiology, Vol. 3 https://doi.org/10.3389/fphys.2012.00222	journal	January 2012
Immunologic Dissonance: A Continuing Evolution in Our Understanding of the Systemic Inflammatory Response Syndrome (SIRS) and the Multiple Organ Dysfunction Syndrome (MODS) Bone, Roger C. Annals of Internal Medicine, Vol. 125, Issue 8 https://doi.org/10.7326/0003-4819-125-8-199610150-00009	journal	October 1996

Similar Records

Cybersecurity in process control, operations, and supply chain

Journal Article · Wed Mar 01 00:00:00 UTC 2023 · Computers and Chemical Engineering · OSTI ID:1999897

BIOLOGICAL AND PHARMACOLOGICAL APPLICATIONS OF ACTIVATION ANALYSIS.

Journal Article · Wed Jan 01 04:00:00 UTC 1969 · pp 91-112 of International Conference on Radioactive Isotopes in Pharmacology, Geneva, 20-23 September 1967. /Waser, P. G. (ed.). New York John Wiley and Sons Ltd. (1969). · OSTI ID:4017514

Economic and energetic analysis of biofuel supply chains

Journal Article · Wed Nov 01 00:00:00 UTC 2017 · Applied Energy · OSTI ID:1549769

On the analysis of complex biological supply chains: From process systems engineering to quantitative systems pharmacology

Citation Formats

References (139)

Similar Records

Related Subjects