Erratum: Modelling of Cellular Metabolism and Microcirculatory Transport (Microcirculation 10.1080/10739680802019709);Modeling of cellular metabolism and microcirculatory transport

Microcirculation

Volumn 15, Issue 8, 2008, Pages 777-793

  Beard, Daniel A ^a   Wu, Fan ^a   Cabrera, Marco E ^b   Dash, Ranjan K ^a  

^a MEDICAL COLLEGE OF WISCONSIN   (United States)

^b CASE WESTERN RESERVE UNIVERSITY   (United States)

Author keywords

Cellular metabolism; Mathematical modeling; Microcirculation; Oxygen transport

Indexed keywords

CARBON DIOXIDE; OXYGEN;

ARTICLE; CARDIOVASCULAR SYSTEM; CELL FUNCTION; CELL METABOLISM; CELL TRANSPORT; CHEMICAL REACTION; COMPARTMENT MODEL; COMPUTER SIMULATION; FLOW KINETICS; GAS EXCHANGE; LUNG CAPILLARY; MATHEMATICAL COMPUTING; MATHEMATICAL MODEL; MICROCIRCULATION; OXYGEN TRANSPORT; PRIORITY JOURNAL; SIGNAL TRANSDUCTION;

VERTEBRATA;

EID: 52649174908     PISSN: 10739688     EISSN: 15498719     Source Type: Journal    
DOI: 10.1080/10739680802476479     Document Type: Erratum

References (81)

1. Andreyev, AY, Kushnareva, YE and Starkov, AA. (2005) Mitochondrial metabolism of reactive oxygen species. Biochemistry (Mosc), 70, pp. 200-214.
2. Audi, SH et al. (2005) Effect of chronic hyperoxic exposure on duroquinone reduction in adult rat lungs. Am J Physiol Lung Cell Mol Physiol, 289, pp. L788-L797.
3. Bache, RJ et al. (1999) Myocardial oxygenation at high workstates in hearts with left ventricular hypertrophy. Cardiovasc Res, 42, pp. 616-626.
4. Bailey, JE. (1998) Mathematical modeling and analysis in biochemical engineering: Past accomplishments and future opportunities. Biotechnol Prog, 14, pp. 8-20.
5. Balaban, RS. (1990) Regulation of oxidative phosphorylation in the mammalian cell. Am J Physiol, 258, pp. C377-C389.
6. Balaban, RS. (2002) Cardiac energy metabolism homeostasis: Role of cytosolic calcium. J Mol Cell Cardiol, 34, pp. 1259-1271.
7. Balaban, RS. (2006) Maintenance of the metabolic homeostasis of the heart: Developing a systems analysis approach. Ann N Y Acad Sci, 1080, pp. 140-153.
8. Bassingthwaighte, JB. (2000) Strategies for the physiome project. Ann Biomed Eng, 28, pp. 1043-1058.
9. Bassingthwaighte, JB and Goresky, CA. (1984) Modeling in the analysis of solute and water exchange in the microvasculature. Handbook of Physiology. Sect. 2, The Cardiovascular System. Vol IV, The Microcirculation, pp. 549-626. American Physiological Society, Bethesda, Maryland, USA
10. Beard, DA. (2005) A biophysical model of the mitochondrial respiratory system and oxidative phosphorylation. PLoS Comput Biol, 1, p. e36.
11. Beard, DA. (2006) Modeling of oxygen transport and cellular energetics explains observations on in vivo cardiac energy metabolism. PLoS Comput Biol, 2, p. e107.
12. Beard, DA and Bassingthwaighte, JB. (2001) Modeling advection and diffusion of oxygen in complex vascular networks. Ann Biomed Eng, 29, pp. 298-310.
13. Beard, DA, Bassingthwaighte, JB and Greene, AS (2005) Computational modeling of physiological systems. Physiol Genom, 23, pp. 1-3.
14. Beard, DA, Schenkman, KA and Feigl, EO. (2003) Myocardial oxygenation in isolated hearts predicted by an anatomically realistic microvascular transport model. Am J Physiol Heart Circ Physiol, 285, pp. H1826-H1836.
15. Beyer Jr, RP, Bassingthwaighte, JB and Deussen, AJ (2002) A computational model of oxygen transport from red blood cells to mitochondria. Comput Meth Prog Biomed, 67, pp. 39-54.
16. Bose, S. et al. (2003) Metabolic network control of oxidative phosphorylation: Multiple roles of inorganic phosphate. J Biol Chem, 278, pp. 39155-39165.
17. Boston, RC et al. (2003) MINMOD Millennium: A computer program to calculate glucose effectiveness and insulin sensitivity from the frequently sampled intravenous glucose tolerance test. Diabetes Technol Ther, 5, pp. 1003-1015.
18. Brand, MD. (1998) Top-down elasticity analysis and its application to energy metabolism in isolated mitochondria and intact cells. Mol Cell Biochem, 184, pp. 13-20.
19. Brand, MD and Curtis, RK. (2002) Simplifying metabolic complexity. Biochem Soc Trans, 30, pp. 25-30.
20. BRENDA The comprehensive enzyme information system
21. Brooks, GA, Fahey, TD and Baldwin, KM. (2004) Exercise Physiology: Human Bioenergetics and its Applications, Mayfield Publishing Company, California, USA
22. Crampin, EJ et al. (2004) Computational physiology and the Physiome Project. Exp Physiol, 89, pp. 1-26.
23. Dash, RK et al. (2008) Modeling cellular metabolism and energetics in skeletal muscle: Large-scale parameter estimation and sensitivity analysis. IEEE Trans Biomed Eng, 55:4
24. Dash, RK and Bassingthwaighte, JB. (2006) Simultaneous blood-tissue exchange of oxygen, carbon dioxide, bicarbonate, and hydrogen ion. Ann Biomed Eng, 34, pp. 1129-1148.
25. Dash, RK, Dibella, JA and Cabrera, ME. (2007) A computational model of skeletal muscle metabolism linking cellular adaptations induced by altered loading states to metabolic responses during exercise. Biomed Eng Online, 6, p. 14.
26. Dash, RK, Jayaraman, G. and Mehta, KN. (2000) Shear augmented dispersion of a solute in a casson fluid flowing in a conduit. Ann Biomed Eng, 28, pp. 373-385.
27. Deussen, A. and Bassingthwaighte, JB. (1996) Modeling [15O]oxygen tracer data for estimating oxygen consumption. Am J Physiol, 270, pp. H1115-H1130.
28. Ejike, JC et al. (2005) Myocardial oxygenation and adenosine release in isolated guinea pig hearts during changes in contractility. Am J Physiol Heart Circ Physiol, 288, pp. H2062-H2067.
29. Fick, AE. Uber diffusion. Annalen der Physik und Chemie (Leipzig), 94, pp. 59-86.
30. Goldman, D., Bateman, RM and Ellis, CG. (2004) Effect of sepsis on skeletal muscle oxygen consumption and tissue oxygenation: Interpreting capillary oxygen transport data using a mathematical model. Am J Physiol Heart Circ Physiol, 287, pp. H2535-H2544.
31. Goldman, D. and Popel, AS. (2000) A computational study of the effect of capillary network anastomoses and tortuosity on oxygen transport. J Theor Biol, 206, pp. 181-194.
32. Gong, G. et al. (2003) Oxidative capacity in failing hearts. Am J Physiol Heart Circ Physiol, 285, pp. H541-H548.
33. Gong, G., Ugurbil, K. and Zhang, J. (1999) Transmural metabolic heterogeneity at high cardiac work states. Am J Physiol, 277, pp. H236-H242.
34. Guyton, AC and Hall, JE (2006) Textbook of Medical Physiology, Elsevier Saunders, Philadelphia, Pennsylvania, USA
35. Hellums, JD et al. (1996) Simulation of intraluminal gas transport processes in the microcirculation. Ann Biomed Eng, 24, pp. 1-24.
36. Hunter, PJ and Borg, TK. (2003) Integration from proteins to organs: The Physiome Project. Nat Rev Mol Cell Biol, 4, pp. 237-243.
37. Hunter, P. and Nielsen, P. (2005) A strategy for integrative computational physiology. Physiology (Bethesda), 20, pp. 316-325.
38. Katz, A. (1988) G-1,6-P2, glycolysis, and energy metabolism during circulatory occlusion in human skeletal muscle. Cell Physiol, 255, pp. C140-C144.
39. Kettunen, MI et al. (2002) Quantitative assessment of the balance between oxygen delivery and consumption in the rat brain after transient ischemia with T2 -BOLD magnetic resonance imaging. J Cereb Blood Flow Metab, 22, pp. 262-270.
40. Krogh, A. (1919) The number and distribution of capillaries in muscle with calculations of the oxygen pressure head necessary for supplying the tissue. J Physiol (Lond), 52, pp. 409-415.
41. Kroll, K., Kinzie, DJ and Gustafson, LA. (1997) Open-system kinetics of myocardial phosphoenergetics during coronary underperfusion. Am J Physiol, 272, pp. H2563-H2576.
42. Lambeth, MJ and Kushmerick, MJ. (2002) A computational model for glycogenolysis in skeletal muscle. Ann Biomed Eng, 30, pp. 808-827.
43. LaNoue, K., Nicklas, WJ and Williamson, JR. (1970) Control of citric acid cycle activity in rat heart mitochondria. J Biol Chem, 245, pp. 102-111.
44. Li, Z., Yipintsoi, T. and Bassingthwaighte, JB Nonlinear model for capillary-tissue oxygen transport and metabolism. Ann Biomed Eng, 25, pp. 604-619.
45. Lin, MT and Beal, MF. (2006) Mitochondrial dysfunction and oxidative stress in neurodegenerative diseases. Nature, 443, pp. 787-795.
46. Liu, L. and Pang, KS. (2006) An integrated approach to model hepatic drug clearance. Eur J Pharm Sci, 29, pp. 215-230.
47. Magistretti, PJ and Pellerin, L. (1999) Cellular mechanisms of brain energy metabolism and their relevance to functional brain imaging. Philos Trans R Soc Lond B Biol Sci, 354, pp. 1155-1163.
48. 2+ and pyruvate in the regulation of rat heart pyruvate dehydrogenase activity. Effects of starvation and diabetes. Biochem J, 202, pp. 419-427.
49. McGuire, BJ and Secomb, TW. (2004) Theoretical predictions of maximal oxygen consumption in hypoxia: Effects of transport limitations. Respir Physiol Neurobiol, 143, pp. 87-97.
50. Nelson, DL and Cox, MM. (2005) Lehninger Principles of Biochemistry, W. H. Freeman and Company, New York
51. Nelson, DL, Cox, MM and Lehninger, AL. (2005) Lehninger Principles of Biochemistry, W.H. Freeman, New York
52. Nicholls, DG and Ferguson, SJ. (2002) Bioenergetics 3, Academic Press, London
53. Noble, D. (2006) The Music of Life: Biology Beyond the Genome, Oxford University Press, Oxford, New York
54. Ochiai, K. et al. (2001) Effects of augmented delivery of pyruvate on myocardial high-energy phosphate metabolism at high work state. Am J Physiol Heart Circ Physiol, 281, pp. H1823-H1832.
55. Ogawa, S. et al. (1993) Functional brain mapping by blood oxygenation level-dependent contrast magnetic resonance imaging. A comparison of signal characteristics with a biophysical model. Biophys J, 64, pp. 803-812.
56. Ogawa, S. et al. (1998) On the characteristics of functional magnetic resonance imaging of the brain. Annu Rev Biophys Biomol Struct, 27, pp. 447-474.
57. Pries, AR, Reglin, B. and Secomb, TW. (2005) Remodeling of blood vessels: Responses of diameter and wall thickness to hemodynamic and metabolic stimuli. Hypertension, 46, pp. 725-731.
58. Pries, AR and Secomb, TW. (2005) Control of blood vessel structure: insights from theoretical models. Am J Physiol Heart Circ Physiol, 288, pp. H1010-H1015.
59. Popel, AS. (1989) Theory of oxygen transport to tissue. Crit Rev Biomed Eng, 17, pp. 257-321.
60. Reich, JG and Sel'kov, EiEe (1981) Energy Metabolism of the Cell: A Theoretical Treatise, Academic Press, London, New York
61. Schenkman, KA et al. (2003) Comparison of buffer and red blood cell perfusion of guinea pig heart oxygenation. Am J Physiol Heart Circ Physiol, 285, pp. H1819-H1825.
62. Schwartz, LM et al. (1999) Cardiac endothelial transport and metabolism of adenosine and inosine. Am J Physiol, 277, pp. H1241-H1251.
63. Scopes, RK. (1974) Studies with a reconstituted muscle glycolytic system. The rate and extent of glycolysis in simulated post-mortem conditions. Biochem J, 142, pp. 79-86.
64. Scopes, RK. (1974) Studies with a reconstituted muscle glycolytic system. The anaerobic glycolytic response to simulated tetanic contraction. Biochem J, 138, pp. 119-123.
65. Secomb, TW et al. (2000) Theoretical simulation of oxygen transport to brain by networks of microvessels: Effects of oxygen supply and demand on tissue hypoxia. Microcirculation, 7, pp. 237-247.
66. 2 transport in skeletal muscle: Diffusive exchange between arterioles and capillaries. Am J Physiol, 267, pp. H1214-H1221.
67. Sharp, MK. (1993) Shear-augmented dispersion in non-Newtonian fluids. Ann Biomed Eng, 21, pp. 407-415.
68. Smith, N. et al. (2007) Computational biology of cardiac myocytes: proposed standards for the physiome. J Exp Biol, 210, pp. 1576-1583.
69. Tsoukias, NM et al. (2007) A computational model of oxygen delivery by hemoglobin-based oxygen carriers in three-dimensional microvascular networks. J Theor Biol, 248, pp. 657-674.
70. Vicini, P. et al. (2002) Epinephrine effects on insulin-glucose dynamics: The labeled IVGTT two-compartment minimal model approach. Am J Physiol Endocrinol Metab, 283, pp. E78-E84.
71. Vinnakota, K., Kemp, ML and Kushmerick, MJ. (2006) Dynamics of muscle glycogenolysis modeled with pH time course computation and pH-dependent reaction equilibria and enzyme kinetics. Biophys J, 91, pp. 1264-1287.
72. Voit, EO. (2000) Computational Analysis of Biochemical Systems. A Practical Guide for Biochemists and Molecular Biologists, Cambridge University Press, Cambridge, UK
73. Wallace, DC. (2005) A mitochondrial paradigm of metabolic and degenerative diseases, aging, and cancer: A dawn for evolutionary medicine. Ann Rev Genet, 39, pp. 359-407.
74. Williams, KV et al. (2003) Glucose transport and phosphorylation in skeletal muscle in obesity: Insight from a muscle-specific positron emission tomography model. J Clin Endocrinol Metab, 88, pp. 1271-1279.
75. Wu, F. et al. (2007) Computer modeling of mitochondrial tricarboxylic acid cycle, oxidative phosphorylation, metabolite transport, and electrophysiology. J Biol Chem, 282, pp. 24525-24537.
76. Wu, F., Jeneson, JA and Beard, DA. (2007) Oxidative ATP synthesis in skeletal muscle is controlled by substrate feedback. Am J Physiol Cell Physiol, 292, pp. C115-C124.
77. Yang, F. et al. (2006) Population-based analysis of methadone distribution and metabolism using an age-dependent physiologically based pharmacokinetic model. J Pharmacokinet Pharmacodyn, 33, pp. 485-518.
78. Zhang, J. et al. (2003) Myocardial oxygenation and high-energy phosphate levels during KATP channel blockade. Am J Physiol Heart Circ Physiol, 285, pp. H1420-H1427.
79. 2 consumption and HEP metabolism. Am J Physiol Heart Circ Physiol, 288, pp. H310-H316.
80. Zhou, L. et al. (2005) Mechanistic model of cardiac energy metabolism predicts localization of glycolysis to cytosolic subdomain during ischemia. Am J Physiol Heart Circ Physiol, 288, pp. H2400-H2411.
81. Zhou, L. et al. (2005) Regulation of lactate production at the onset of ischaemia is independent of mitochondrial NADH/NAD+: Insights from in silico studies. J Physiol, 569, pp. 925-937.