Functional Unit Representation Method (FURM)

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  1. <DOI>Computational experiments reveal plausible mechanisms for changing patterns of hepatic zonation of xenobiotic clearance and hepatotoxicity.  S. Sheikh-Bahaei, J.J. Maherb, and C.A. Hunt.  Journal of Theoretical Biology, published online: 10 June 2010
  2. <DOI>Tracing Multiscale Mechanisms of Drug Disposition in Normal and Diseased Livers.  S. Park, S.H. Kim, G.E. Ropella, M.S. Roberts, C.A. Hunt.  J Pharmacol Exp Ther, published online: April 20, 2010
  3. <DOI>Identifying the rules of engagement enabling leukocyte rolling, activation, and adhesion.  J. Tang, C.A. Hunt.  PLoS Comput Biol 6(2):e1000681 (2010).
  4. <DOI>Simulation of lung alveolar epithelial wound healing in vitro.  S.H.J. Kim, M.A. Matthay, K. Mostov, C.A. Hunt.  J R Soc Interface, published: March 17, 2010.
  5. <DOI>Mechanistic insight from in silico pharmacokinetic experiments: roles of P-glycoprotein, Cyp3A4 enzymes, and microenvironments.  T.N. Lam, C.A. Hunt.  J Pharmacol Exp Ther 332(2):398-412 (2010).
  6. <DOI>A Computational Approach to Resolve Cell Level Contributions to Early Glandular Epithelial Cancer Progression.  S.H.J. Kim, J. Debnath, K. Mostov, S. Park, C.A. Hunt.  BMC Systems Biology 3(1):122 (2009).
  7. <PubMed>At the Biological Modeling and Simulation Frontier.  C.A. Hunt, G.E. Ropella, T.N. Lam, J. Tang, S.H. Kim, J.A. Engelberg, S. Sheikh-Bahaei.  Pharm Res 26(11): 2369-2400 (2009).
  8. <DOI>Computational Investigation of Epithelial Cell Dynamic Phenotype In Vitro.  S.H.J. Kim, S. Park, K. Mostov, J. Debnath, and C.A. Hunt.  Theoretical Biology and Medical Modelling. 6:8 (2009).
  9. <IJICS>Understanding the Role of Liver Zonation in Toxin Elimination.  S. Sheikh-Bahaei, S.H.J. Kim, S. Sheikhbahaei, and C.A. Hunt.  The International Journal of Intelligent Controls and Systems 14(1): 33-40 (2009).
  10. <IJICS>Multi-Agent Simulation of Self-Organizing Behaviors of Alveolar Cells In Vitro.  S.H.J. Kim, S. Sheikh-Bahaei, and C.A. Hunt.  The International Journal of Intelligent Controls and Systems 14(1): 41-50 (2009).
  11. <DOI>A Computational Approach to Understand In Vitro Alveolar Morphogenesis.  S.H.J. Kim, W. Yu, K. Mostov, M.A. Matthay, and C.A. Hunt.  PLoS ONE 4(3): e4819 (2009).
  12. <DOI>Essential operating principles for tumor spheroid growth.  J.A. Engelberg, G.E. Ropella, and C.A. Hunt.  BMC Syst Biol 2:110 (2009).
  13. <DOI>Discovering plausible mechanistic details of hepatic drug interactions.  T.N. Lam and C.A. Hunt.  Drug Metab Dispos 37(1):237-246 (2009).
  14. <DOI>Computational strategies unravel and trace how liver disease changes hepatic drug disposition.  S. Park, G.E. Ropella, S.H. Kim, M.S. Roberts, and C.A. Hunt.  J Pharmacol Exp Therap 328(1):294-305 (2009).
  15. <DOI>Evaluating an Hepatic Enzyme Induction Mechanism through Coarse- and Fine-Grained Measurements of an In Silico Liver.  G.E. Ropella, S. Park, and C.A. Hunt.  Complexity. 14(6):28-34 (2008).
  16. <Nature>Dichotomies Between Computational and Mathematical Models.  C.A. Hunt, G.E. Ropella, S. Park, and J. Engelberg.  Nat Biotechnol 26:737-8 (2008).
  17. <DOI>In Silico Methods for Unraveling the Mechanistic Complexities of Intestinal Absorption: Metabolism–Efflux Transport Interactions.  Lana X. Garmire and C.A. Hunt.  Drug Metab Dispos 36: 1414-24 (2008).
  18. <DOI>Predictions of Hepatic Disposition Properties Using a Mechanistically Realistic, Physiologically Based Model.  L. Yan, S. Sheihk-Bahaei, S. Park, G.E. Ropella, and C.A. Hunt.  Drug Metab Dispos 36(4): 759-768 (2008). (Featured Article).
  19. <DOI>Modeling and Simulation of Hepatic Drug Disposition Using a Physiologically Based, Multi-agent In Silico Liver.  L. Yan, G.E. Ropella, S. Park, M.S. Roberts, and C.A. Hunt.  Pharm Res 25: 1023-36 (2008).
  20. <DOI>Synthetic Nano-LDL with Paclitaxel Oleate as a Targeted Drug Delivery Vehicle for Glioblastoma Multiforme.  M. Nikanjam, A.R. Gibbs, C.A. Hunt, T.F. Budinger, and T.M. Forte.  J Cont Release 24: 163-71 (2007).
  21. <DOI>An In Silico Transwell Device for the Study of Drug Transport and Drug-Drug Interactions.  L.X. Garmire, D.G. Garmire, and C.A. Hunt.  Pharm Res 24: 2171-86 (2007) (Featured Article).
  22. <DOI>Challenges and rewards on the road to translational systems biology in acute illness: four case reports from interdisciplinary teams.  G. An, C.A. Hunt, G. Clermont, E. Neugebauer, and Y Vodovotz.  J Crit Care 22:169-75 (2007).
  23. <DOI>Dynamics of in Silico Leukocyte Rolling, Activation, and Adhesion.  J. Tang, K.F. Ley, and C.A. Hunt.  BMC Systems Biology 1: 14 (2007).
  24. <DOI>Formation of cysts by alveolar type II cells in three-dimensional culture reveals a novel mechanism for epithelial morphogenesis.  W. Yu, X. Fang, A. Ewald, K. Wong, C.A. Hunt, Z. Werb, M.A. Matthay, and K. Mostov.  Mol Biol Cell 18(5): 1693-700 (2007).
  25. <DOI>Cost-Based Partitioning For Distributed and Parallel Simulation of Decomposable Multiscale Constructive Models.  S. Park, C.A. Hunt, and B.P. Zeigler.  Simulation 82(12): 809-26 (2006).
  26. <DOI>Physiologically Based Synthetic Models of Hepatic Disposition.  C.A. Hunt, G.E. Ropella, L. Yan, D.Y. Hung, and M.S. Roberts.  J Pharmacokin Pharmacodyn 33(6): 737-72 (2006). Hunt_JPKPD_v33p737_2006.pdf (author copy)
  27. <DOI>Simulating Properties of In Vitro Epithelial Cell Morphogenesis.  M.R. Grant, K.E. Mostov, T.D. Tlsty, and C.A. Hunt.  PLoS Computational Biology 2(10): e129, 1193-1209 (2006).
  28. <DOI>An In Silico Analogue of In Vitro Systems Used to Study Epithelial Cell Morphogenesis.  M.R. Grant and C.A. Hunt.  In: C. Priami (Ed.): CMSB 2006, LNCS 4210: 285-97 (2006).
  29. <DOI>Mechanistic study of the interplay of intestinal transport and metabolism using the synthetic modeling method.  Y. Liu and C. A. Hunt.  Pharm Res 23(3): 493-505 (2006). Liu_PharmRes_v23p493_2006.pdf (author copy)
  30. <DOI>Studies of Intestinal Drug Transport Using an In Silico Epithelio-Mimetic Device.  Y. Liu and C.A. Hunt.  Biosystems 82(2): 154-167 (2005). Liu_Biosystems_v82p154_2005.pdf (author copy)
  31. <DOI>Biomimetic in silico devices.  C.A. Hunt, G.E. Ropella, M.S. Roberts, L. Yan.  In: V. Danos and V. Schachter (Eds.): CMBS 2004, LNCS 3082: 35-43 (2005).
  32. <DOI>Glucose transport to the brain: A systems model.  A.A. Qutub and C.A. Hunt.  Brain Research Rev 49(3): 595-617 (2005).
  33. <DOI>Plasticity of gene expression in injured human dorsal root ganglia revealed by GeneChip oligonucleotide microarrays.  D. Rabert, Y. Xiao, Y. Yiangou, D. Kreder, L. Sangameswaran, M.R. Segal, C.A. Hunt, R. Birch, P. Anand.   J Clin Neurosci 11(3): 289-99 (2004).