메뉴 건너뛰기




Volumn 4, Issue , 2017, Pages 43-52

Quantitative systems pharmacology and the personalized drug-microbiota-diet axis

Author keywords

Constraint based modeling; Drug metabolism; Gut microbiota; Pharmacokinetic modeling; Precision medicine

Indexed keywords

COMPUTATIONAL MODEL; COMPUTER MODEL; DIET; DRUG INTERACTION; DRUG METABOLISM; DRUG RESPONSE; HUMAN; HYBRID; INTESTINE FLORA; MICROBIAL METABOLISM; NONBIOLOGICAL MODEL; NONHUMAN; PERSONALIZED MEDICINE; PHARMACOKINETICS; PHARMACOLOGY; QUANTITATIVE STUDY; REVIEW;

EID: 85045297392     PISSN: None     EISSN: 24523100     Source Type: Journal    
DOI: 10.1016/j.coisb.2017.06.001     Document Type: Review
Times cited : (39)

References (72)
  • 1
    • 43049122356 scopus 로고    scopus 로고
    • From human genetics and genomics to pharmacogenetics and pharmacogenomics: past lessons, future directions
    • Nebert D.W., Zhang G., Vesell E.S. From human genetics and genomics to pharmacogenetics and pharmacogenomics: past lessons, future directions. Drug Metab Rev 2008, 40:187-224.
    • (2008) Drug Metab Rev , vol.40 , pp. 187-224
    • Nebert, D.W.1    Zhang, G.2    Vesell, E.S.3
  • 4
    • 85015745635 scopus 로고    scopus 로고
    • Recent advances in development and application of physiologically-based pharmacokinetic (PBPK) models: a transition from academic curiosity to regulatory acceptance
    • Jamei M. Recent advances in development and application of physiologically-based pharmacokinetic (PBPK) models: a transition from academic curiosity to regulatory acceptance. Curr Pharmacol Rep 2016, 2:161-169.
    • (2016) Curr Pharmacol Rep , vol.2 , pp. 161-169
    • Jamei, M.1
  • 6
    • 70149092771 scopus 로고    scopus 로고
    • Drugs, bugs, and personalized medicine: pharmacometabonomics enters the ring
    • Wilson I.D. Drugs, bugs, and personalized medicine: pharmacometabonomics enters the ring. Proc Natl Acad Sci U. S. A 2009, 106:14187-14188.
    • (2009) Proc Natl Acad Sci U. S. A , vol.106 , pp. 14187-14188
    • Wilson, I.D.1
  • 7
    • 84928789447 scopus 로고    scopus 로고
    • Personalized medicine: time for one-person trials
    • Schork N.J. Personalized medicine: time for one-person trials. Nature 2015, 520:609-611.
    • (2015) Nature , vol.520 , pp. 609-611
    • Schork, N.J.1
  • 9
    • 84895433853 scopus 로고    scopus 로고
    • Factors affecting the development of adverse drug reactions (Review article)
    • Alomar M.J. Factors affecting the development of adverse drug reactions (Review article). Saudi Pharm J 2014, 22:83-94.
    • (2014) Saudi Pharm J , vol.22 , pp. 83-94
    • Alomar, M.J.1
  • 10
    • 70149096873 scopus 로고    scopus 로고
    • Pharmacometabonomic identification of a significant host-microbiome metabolic interaction affecting human drug metabolism
    • Clayton T.A., Baker D., Lindon J.C., Everett J.R., Nicholson J.K. Pharmacometabonomic identification of a significant host-microbiome metabolic interaction affecting human drug metabolism. Proc Natl Acad Sci U. S. A 2009, 106:14728-14733.
    • (2009) Proc Natl Acad Sci U. S. A , vol.106 , pp. 14728-14733
    • Clayton, T.A.1    Baker, D.2    Lindon, J.C.3    Everett, J.R.4    Nicholson, J.K.5
  • 11
    • 84986245731 scopus 로고    scopus 로고
    • Pharmacogenetics: the right drug for you
    • Drew L. Pharmacogenetics: the right drug for you. Nature 2016, 537:S60-S62.
    • (2016) Nature , vol.537 , pp. S60-S62
    • Drew, L.1
  • 12
    • 84970959690 scopus 로고    scopus 로고
    • Mirror, mirror on the wall: which microbiomes will help heal them all?
    • Nayak R.R., Turnbaugh P.J. Mirror, mirror on the wall: which microbiomes will help heal them all?. BMC Med 2016, 14:72.
    • (2016) BMC Med , vol.14 , pp. 72
    • Nayak, R.R.1    Turnbaugh, P.J.2
  • 16
    • 84872535919 scopus 로고    scopus 로고
    • Xenobiotics shape the physiology and gene expression of the active human gut microbiome
    • Maurice C.F., Haiser H.J., Turnbaugh P.J. Xenobiotics shape the physiology and gene expression of the active human gut microbiome. Cell 2013, 152:39-50.
    • (2013) Cell , vol.152 , pp. 39-50
    • Maurice, C.F.1    Haiser, H.J.2    Turnbaugh, P.J.3
  • 17
    • 84946218719 scopus 로고    scopus 로고
    • Review: mechanisms of how the intestinal microbiota alters the effects of drugs and bile acids
    • Klaassen C.D., Cui J.Y. Review: mechanisms of how the intestinal microbiota alters the effects of drugs and bile acids. Drug Metab Dispos 2015, 43:1505-1521.
    • (2015) Drug Metab Dispos , vol.43 , pp. 1505-1521
    • Klaassen, C.D.1    Cui, J.Y.2
  • 18
    • 84922983227 scopus 로고    scopus 로고
    • Insights on the human microbiome and its xenobiotic metabolism: what is known about its effects on human physiology?
    • Tralau T., Sowada J., Luch A. Insights on the human microbiome and its xenobiotic metabolism: what is known about its effects on human physiology?. Expert Opin Drug Metab Toxicol 2015, 11:411-425.
    • (2015) Expert Opin Drug Metab Toxicol , vol.11 , pp. 411-425
    • Tralau, T.1    Sowada, J.2    Luch, A.3
  • 19
    • 84861964370 scopus 로고    scopus 로고
    • Is it time for a metagenomic basis of therapeutics?
    • New York, N. Y
    • Haiser H.J., Turnbaugh P.J. Is it time for a metagenomic basis of therapeutics?. Science 2012, 336:1253-1255. New York, N. Y.
    • (2012) Science , vol.336 , pp. 1253-1255
    • Haiser, H.J.1    Turnbaugh, P.J.2
  • 20
    • 84961226156 scopus 로고    scopus 로고
    • The microbial pharmacists within us: a metagenomic view of xenobiotic metabolism
    • Spanogiannopoulos P., Bess E.N., Carmody R.N., Turnbaugh P.J. The microbial pharmacists within us: a metagenomic view of xenobiotic metabolism. Nat Rev 2016, 14:273-287.
    • (2016) Nat Rev , vol.14 , pp. 273-287
    • Spanogiannopoulos, P.1    Bess, E.N.2    Carmody, R.N.3    Turnbaugh, P.J.4
  • 21
    • 84880439384 scopus 로고    scopus 로고
    • Predicting and manipulating cardiac drug inactivation by the human gut bacterium Eggerthella lenta
    • New York, N. Y
    • Haiser H.J., Gootenberg D.B., Chatman K., Sirasani G., Balskus E.P., Turnbaugh P.J. Predicting and manipulating cardiac drug inactivation by the human gut bacterium Eggerthella lenta. Science 2013, 341:295-298. New York, N. Y.
    • (2013) Science , vol.341 , pp. 295-298
    • Haiser, H.J.1    Gootenberg, D.B.2    Chatman, K.3    Sirasani, G.4    Balskus, E.P.5    Turnbaugh, P.J.6
  • 22
    • 84899456016 scopus 로고    scopus 로고
    • Mechanistic insight into digoxin inactivation by Eggerthella lenta augments our understanding of its pharmacokinetics
    • Haiser H.J., Seim K.L., Balskus E.P., Turnbaugh P.J. Mechanistic insight into digoxin inactivation by Eggerthella lenta augments our understanding of its pharmacokinetics. Gut Microbes 2014, 5:233-238.
    • (2014) Gut Microbes , vol.5 , pp. 233-238
    • Haiser, H.J.1    Seim, K.L.2    Balskus, E.P.3    Turnbaugh, P.J.4
  • 23
    • 84961223855 scopus 로고    scopus 로고
    • Functional redundancy-induced stability of gut microbiota subjected to disturbance
    • Moya A., Ferrer M. Functional redundancy-induced stability of gut microbiota subjected to disturbance. Trends Microbiol 2016, 24:402-413.
    • (2016) Trends Microbiol , vol.24 , pp. 402-413
    • Moya, A.1    Ferrer, M.2
  • 24
    • 84887988248 scopus 로고    scopus 로고
    • Physiologically-based pharmacokinetic (PBPK) modeling and simulations principles, methods, and applications in the pharmaceutical industry
    • Rowland M. Physiologically-based pharmacokinetic (PBPK) modeling and simulations principles, methods, and applications in the pharmaceutical industry. CPT Pharmacomet Syst Pharmacol 2013, 2:e55.
    • (2013) CPT Pharmacomet Syst Pharmacol , vol.2
    • Rowland, M.1
  • 25
    • 0042161645 scopus 로고    scopus 로고
    • Whole body pharmacokinetic models
    • Nestorov I. Whole body pharmacokinetic models. Clin Pharmacokinet 2003, 42:883-908.
    • (2003) Clin Pharmacokinet , vol.42 , pp. 883-908
    • Nestorov, I.1
  • 27
    • 84895918390 scopus 로고    scopus 로고
    • Metabolomics and systems pharmacology: why and how to model the human metabolic network for drug discovery
    • Kell D.B., Goodacre R. Metabolomics and systems pharmacology: why and how to model the human metabolic network for drug discovery. Drug Discov today 2014, 19:171-182.
    • (2014) Drug Discov today , vol.19 , pp. 171-182
    • Kell, D.B.1    Goodacre, R.2
  • 28
    • 84992121177 scopus 로고    scopus 로고
    • An introduction to physiologically-based pharmacokinetic models
    • Upton R.N., Foster D.J., Abuhewla A.Y. An introduction to physiologically-based pharmacokinetic models. Paediatr Anaesth 2016, 26:1036-1046.
    • (2016) Paediatr Anaesth , vol.26 , pp. 1036-1046
    • Upton, R.N.1    Foster, D.J.2    Abuhewla, A.Y.3
  • 29
    • 34447330544 scopus 로고    scopus 로고
    • Whole-body physiologically based pharmacokinetic models
    • Nestorov I. Whole-body physiologically based pharmacokinetic models. Expert Opin Drug Metab Toxicol 2007, 3:235-249.
    • (2007) Expert Opin Drug Metab Toxicol , vol.3 , pp. 235-249
    • Nestorov, I.1
  • 30
    • 84883409705 scopus 로고    scopus 로고
    • Basic concepts in physiologically based pharmacokinetic modeling in drug discovery and development
    • Jones H., Rowland-Yeo K. Basic concepts in physiologically based pharmacokinetic modeling in drug discovery and development. CPT Pharmacomet Syst Pharmacol 2013, 2:e63.
    • (2013) CPT Pharmacomet Syst Pharmacol , vol.2
    • Jones, H.1    Rowland-Yeo, K.2
  • 31
    • 84862619047 scopus 로고    scopus 로고
    • Physiologically based pharmacokinetics joined with in vitro-in vivo extrapolation of ADME: a marriage under the arch of systems pharmacology
    • Rostami-Hodjegan A. Physiologically based pharmacokinetics joined with in vitro-in vivo extrapolation of ADME: a marriage under the arch of systems pharmacology. Clin Pharmacol Ther 2012, 92:50-61.
    • (2012) Clin Pharmacol Ther , vol.92 , pp. 50-61
    • Rostami-Hodjegan, A.1
  • 32
    • 84946239939 scopus 로고    scopus 로고
    • Physiologically based pharmacokinetic (PBPK) modeling and simulation approaches: a systematic review of published models, applications, and model verification
    • Sager J.E., Yu J., Ragueneau-Majlessi I., Isoherranen N. Physiologically based pharmacokinetic (PBPK) modeling and simulation approaches: a systematic review of published models, applications, and model verification. Drug Metab Dispos 2015, 43:1823-1837.
    • (2015) Drug Metab Dispos , vol.43 , pp. 1823-1837
    • Sager, J.E.1    Yu, J.2    Ragueneau-Majlessi, I.3    Isoherranen, N.4
  • 33
    • 84887207656 scopus 로고    scopus 로고
    • Estimation of feasible solution space using Cluster Newton Method: application to pharmacokinetic analysis of irinotecan with physiologically-based pharmacokinetic models
    • Yoshida K., Maeda K., Kusuhara H., Konagaya A. Estimation of feasible solution space using Cluster Newton Method: application to pharmacokinetic analysis of irinotecan with physiologically-based pharmacokinetic models. BMC Syst Biol 2013, 7(Suppl 3):S3.
    • (2013) BMC Syst Biol , vol.7 , pp. S3
    • Yoshida, K.1    Maeda, K.2    Kusuhara, H.3    Konagaya, A.4
  • 34
    • 85052707536 scopus 로고    scopus 로고
    • Model-based dietary optimization for late-stage, levodopa-treated, Parkinson's disease patients
    • Guebila M.B., Thiele I. Model-based dietary optimization for late-stage, levodopa-treated, Parkinson's disease patients. Npj Syst Biol Appl 2016, 2:16013.
    • (2016) Npj Syst Biol Appl , vol.2 , pp. 16013
    • Guebila, M.B.1    Thiele, I.2
  • 35
    • 0035478779 scopus 로고    scopus 로고
    • Predicting the impact of physiological and biochemical processes on oral drug bioavailability
    • Agoram B., Woltosz W.S., Bolger M.B. Predicting the impact of physiological and biochemical processes on oral drug bioavailability. Adv Drug Deliv Rev 2001, 50(Suppl 1):S41-S67.
    • (2001) Adv Drug Deliv Rev , vol.50 , pp. S41-S67
    • Agoram, B.1    Woltosz, W.S.2    Bolger, M.B.3
  • 36
    • 0032531309 scopus 로고    scopus 로고
    • Characterization of small intestinal transit time distribution in humans
    • Yu L.X., Amidon G.L. Characterization of small intestinal transit time distribution in humans. Int J Pharm 1998, 171:157-163.
    • (1998) Int J Pharm , vol.171 , pp. 157-163
    • Yu, L.X.1    Amidon, G.L.2
  • 38
    • 84890631557 scopus 로고    scopus 로고
    • PopGen: a virtual human population generator
    • McNally K., Cotton R., Hogg A., Loizou G. PopGen: a virtual human population generator. Toxicology 2014, 315:70-85.
    • (2014) Toxicology , vol.315 , pp. 70-85
    • McNally, K.1    Cotton, R.2    Hogg, A.3    Loizou, G.4
  • 39
    • 33747835599 scopus 로고    scopus 로고
    • Differences in absorption, distribution, metabolism and excretion of xenobiotics between the paediatric and adult populations
    • Strolin Benedetti M., Whomsley R., Baltes E.L. Differences in absorption, distribution, metabolism and excretion of xenobiotics between the paediatric and adult populations. Expert Opin Drug Metab Toxicol 2005, 1:447-471.
    • (2005) Expert Opin Drug Metab Toxicol , vol.1 , pp. 447-471
    • Strolin Benedetti, M.1    Whomsley, R.2    Baltes, E.L.3
  • 41
    • 84860475597 scopus 로고    scopus 로고
    • Anatomical, physiological and metabolic changes with gestational age during normal pregnancy: a database for parameters required in physiologically based pharmacokinetic modelling
    • Abduljalil K., Furness P., Johnson T.N., Rostami-Hodjegan A., Soltani H. Anatomical, physiological and metabolic changes with gestational age during normal pregnancy: a database for parameters required in physiologically based pharmacokinetic modelling. Clin Pharmacokinet 2012, 51:365-396.
    • (2012) Clin Pharmacokinet , vol.51 , pp. 365-396
    • Abduljalil, K.1    Furness, P.2    Johnson, T.N.3    Rostami-Hodjegan, A.4    Soltani, H.5
  • 46
    • 84898663879 scopus 로고    scopus 로고
    • Identification of anticancer drugs for hepatocellular carcinoma through personalized genome-scale metabolic modeling
    • Agren R., Mardinoglu A., Asplund A., Kampf C., Uhlen M., Nielsen J. Identification of anticancer drugs for hepatocellular carcinoma through personalized genome-scale metabolic modeling. Mol Syst Biol 2014, 10:721.
    • (2014) Mol Syst Biol , vol.10 , pp. 721
    • Agren, R.1    Mardinoglu, A.2    Asplund, A.3    Kampf, C.4    Uhlen, M.5    Nielsen, J.6
  • 48
    • 84925933412 scopus 로고    scopus 로고
    • Modeling the effects of commonly used drugs on human metabolism
    • Sahoo S., Haraldsdottir H.S., Fleming R.M., Thiele I. Modeling the effects of commonly used drugs on human metabolism. FEBS J 2015, 282:297-317.
    • (2015) FEBS J , vol.282 , pp. 297-317
    • Sahoo, S.1    Haraldsdottir, H.S.2    Fleming, R.M.3    Thiele, I.4
  • 50
    • 84865768271 scopus 로고    scopus 로고
    • A compendium of inborn errors of metabolism mapped onto the human metabolic network
    • Sahoo S., Franzson L., Jonsson J.J., Thiele I. A compendium of inborn errors of metabolism mapped onto the human metabolic network. Mol Biosyst 2012, 8:2545-2558.
    • (2012) Mol Biosyst , vol.8 , pp. 2545-2558
    • Sahoo, S.1    Franzson, L.2    Jonsson, J.J.3    Thiele, I.4
  • 53
    • 78049445175 scopus 로고    scopus 로고
    • Drug off-target effects predicted using structural analysis in the context of a metabolic network model
    • Chang R.L., Xie L., Bourne P.E., Palsson B.O. Drug off-target effects predicted using structural analysis in the context of a metabolic network model. PLoS Comput Biol 2010, 6.
    • (2010) PLoS Comput Biol , vol.6
    • Chang, R.L.1    Xie, L.2    Bourne, P.E.3    Palsson, B.O.4
  • 54
    • 85045306061 scopus 로고    scopus 로고
    • A multiscale, model-based analysis of the multi-tissue interplay underlying blood glucose regulation in diabetes
    • (Orlando)
    • Wadehn F.S.S., Eissing T., Krauss M., Kuepfer L. A multiscale, model-based analysis of the multi-tissue interplay underlying blood glucose regulation in diabetes. EMBC 2016, (Orlando).
    • (2016) EMBC
    • Wadehn, F.S.S.1    Eissing, T.2    Krauss, M.3    Kuepfer, L.4
  • 56
    • 84991032295 scopus 로고    scopus 로고
    • A multi-scale model of the whole human body based on dynamic parsimonious flux balance analysis
    • Toroghi M.K., Cluett W.R., Mahadevan R. A multi-scale model of the whole human body based on dynamic parsimonious flux balance analysis. IFAC-PapersOnLine 2016, 49:937-942.
    • (2016) IFAC-PapersOnLine , vol.49 , pp. 937-942
    • Toroghi, M.K.1    Cluett, W.R.2    Mahadevan, R.3
  • 58
  • 59
    • 84878949529 scopus 로고    scopus 로고
    • Predicting the impact of diet and enzymopathies on human small intestinal epithelial cells
    • Sahoo S., Thiele I. Predicting the impact of diet and enzymopathies on human small intestinal epithelial cells. Hum Mol Genet 2013, 22:2705-2722.
    • (2013) Hum Mol Genet , vol.22 , pp. 2705-2722
    • Sahoo, S.1    Thiele, I.2
  • 61
    • 84950258683 scopus 로고    scopus 로고
    • Computational modeling of human metabolism and its application to systems biomedicine
    • Clifton, N. J
    • Aurich M.K., Thiele I. Computational modeling of human metabolism and its application to systems biomedicine. Methods Mol Biol 2016, 1386:253-281. Clifton, N. J.
    • (2016) Methods Mol Biol , vol.1386 , pp. 253-281
    • Aurich, M.K.1    Thiele, I.2
  • 63
    • 84928110174 scopus 로고    scopus 로고
    • Systematic prediction of health-relevant human-microbial co-metabolism through a computational framework
    • Heinken A., Thiele I. Systematic prediction of health-relevant human-microbial co-metabolism through a computational framework. Gut Microbes 2015, 6:120-130.
    • (2015) Gut Microbes , vol.6 , pp. 120-130
    • Heinken, A.1    Thiele, I.2
  • 64
    • 84894254929 scopus 로고    scopus 로고
    • Computational tools for modeling xenometabolism of the human gut microbiota
    • Klunemann M., Schmid M., Patil K.R. Computational tools for modeling xenometabolism of the human gut microbiota. Trends Biotechnol 2014, 32:157-165.
    • (2014) Trends Biotechnol , vol.32 , pp. 157-165
    • Klunemann, M.1    Schmid, M.2    Patil, K.R.3
  • 65
    • 84962045215 scopus 로고    scopus 로고
    • Genomic analysis of the human gut microbiome suggests novel enzymes involved in quinone biosynthesis
    • Ravcheev D.A., Thiele I. Genomic analysis of the human gut microbiome suggests novel enzymes involved in quinone biosynthesis. Front Microbiol 2016, 7.
    • (2016) Front Microbiol , vol.7
    • Ravcheev, D.A.1    Thiele, I.2
  • 67
    • 84881086390 scopus 로고    scopus 로고
    • To supplement or not to supplement: a metabolic network framework for human nutritional supplements
    • Nogiec C.D., Kasif S. To supplement or not to supplement: a metabolic network framework for human nutritional supplements. PLoS One 2013, 8:e68751.
    • (2013) PLoS One , vol.8
    • Nogiec, C.D.1    Kasif, S.2
  • 68
    • 0035641176 scopus 로고    scopus 로고
    • Primal-dual solution perturbations in convex optimization
    • Dontchev A.L., Rockafellar R.T. Primal-dual solution perturbations in convex optimization. Set-Valued Anal 2001, 9:49-65.
    • (2001) Set-Valued Anal , vol.9 , pp. 49-65
    • Dontchev, A.L.1    Rockafellar, R.T.2
  • 69
    • 80054052364 scopus 로고    scopus 로고
    • A variational principle for computing nonequilibrium fluxes and potentials in genome-scale biochemical networks
    • Fleming R.M., Maes C.M., Saunders M.A., Ye Y., Palsson B.O. A variational principle for computing nonequilibrium fluxes and potentials in genome-scale biochemical networks. J Theor Biol 2012, 292:71-77.
    • (2012) J Theor Biol , vol.292 , pp. 71-77
    • Fleming, R.M.1    Maes, C.M.2    Saunders, M.A.3    Ye, Y.4    Palsson, B.O.5
  • 70
    • 84959193128 scopus 로고    scopus 로고
    • Discrete mechanics and variational integrators
    • Mardsen J.E., West M. Discrete mechanics and variational integrators. Acta Numer 2001, 10:357-514.
    • (2001) Acta Numer , vol.10 , pp. 357-514
    • Mardsen, J.E.1    West, M.2
  • 71
    • 84995939516 scopus 로고    scopus 로고
    • Reliable and efficient solution of genome-scale models of Metabolism and macromolecular Expression
    • Ma, D.Y.L.; Fleming, R.M.T.; Thiele, I.; Palsson, B.O.; Saunders, M.A. (2016). Reliable and efficient solution of genome-scale models of Metabolism and macromolecular Expression.
    • (2016)
    • Ma, D.Y.L.1    Fleming, R.M.T.2    Thiele, I.3    Palsson, B.O.4    Saunders, M.A.5
  • 72
    • 84981288471 scopus 로고    scopus 로고
    • Irinotecan-induced toxicity pharmacogenetics: an umbrella review of systematic reviews and meta-analyses
    • Campbell J.M., Stephenson M.D., Bateman E., Peters M.D., Keefe D.M., Bowen J.M. Irinotecan-induced toxicity pharmacogenetics: an umbrella review of systematic reviews and meta-analyses. Pharmacogen J 2016, 17:21-28.
    • (2016) Pharmacogen J , vol.17 , pp. 21-28
    • Campbell, J.M.1    Stephenson, M.D.2    Bateman, E.3    Peters, M.D.4    Keefe, D.M.5    Bowen, J.M.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.