Shadrin K.V., Pakhomova V.G., Rupenko A.P., Kryukova Ξ.V., Khlebopros R.G.
Stoichiometric Modeling of Oxygen Transportation through the Surface of Isolated Perfused Rat Liver
Mathematical Biology & Bioinformatics. 2016;11(2):263-277.
doi: 10.17537/2016.11.263.
References
- Drozdov-Tikhomirov L.N., Serganova V.V., Skurida G.I. Biotekhnologiya (Biotechnology in Russia). 1986;2(8):28-37 (in Russ.).
- Ivanov K.P., Kisliakov Iu.Ia. Energeticheskie potrebnosti i kislorodnoe obespechenie golovnogo mozga (Energy needs and oxygen supply of the brain). Leningrad; 1979. 212 p. (in Russ.).
- Inzhevatkin E.V., Nefedov V.P., Savchenko A.A. Vestnik novykh meditsinskikh tekhnologii (Journal of New Medical Technologies). 2000(1):25-28 (in Russ.).
- Kamiia N. Dvizhenie protoplazmy (Movement of protoplasm). Moscow; 1962. 306 p.
- Luk'ianova L.D., Balmukhanov B.S., Ugolev A.T. Kislorodzavisimye protsessy v kletke i ee funktsional'noe sostoianie (Oxygen-dependent processes in the cell and cell’s functional state). Moscow; 1981 (in Russ.).
- Nazipova N.N., Elkin Yu.E., Panjukov V.V., Drozdov-Tikhomirov L.N. Rate calculation for metabolic reactions in a living and growing cell by the method of steady-state stoichiometric flux balance. Mathematical Biology and Bioinformatics. 2007;2:98-119 (in Russ.). doi: 10.17537/2007.2.98
- Nefedov V.P., Rupenko A.P., Valuk V.A., Panov A.V., Vavilin V.A. In: Uspekhi gepatologii (Acta hepatologica). 1991;15:335-352 (in Russ.).
- N'iuskholm E., Start K. Reguliatsiia metabolizma. Moscow; 1977. 407 p. (Translation of: Newsholme E.A., Start C. Regulation in Metabolism. 1973).
- Remmel N.N., Kratasyuk V.A., Maznyak O.M., Inzhevatkin E.V., Nefedov V.P. Bioluminescent analysis of intensity of pathological oxidative processes in cells of perfused rat liver after hyperthermia. Bulletin of Experimental Biology and Medicine. 2003;135(1):52-54. doi: 10.1023/A:1023489727703
- Rupenko A.P., Kruglik O.V., Morgulis I.I. Oxygen supply of rat liver under the conditions of isolated perfusion. Doklady Biological Sciences. 2008;418(1):4-6. doi: 10.1134/S001249660801002X
- Ugolev A.M. Evoliutsiia pishchevareniia i printsipy evoliutsii funktsii. Elementy sovremennogo funktsionalizma (Evolution of digestion and principles of evolution of functions. Elements of modern functionalism). Leningrad; 1985 (in Russ.).
- Arai K., Lee K., Berthiaume F., Tompkins R.G., Yarmush M.L. Intrahepatic amino acid and glucose metabolism in a D-galactosamine-induced rat liver failure model. Hepatology. 2001;34:360-371. doi: 10.1053/jhep.2001.26515
- Banta S., Vemula M., Yokoyama T., Jayaraman A., Berthiaume F., Yarmush M.L. Contribution of gene expression to metabolic fluxes in hypermetabolic livers induced through burn injury and cecal ligation and puncture in rats. Biotechnol. Bioeng. 2007;97:118-137. doi: 10.1002/bit.21200
- Banta S., Yokoyama T., Berthiaume F., Yarmush M.L. Effects of dehydroepiandrosterone administration on rat hepatic metabolism following thermal injury. J. Surg. Res. 2005;127:93-105. doi: 10.1016/j.jss.2005.01.001
- Calvetti D., Kuceyeski A., Somersalo E. Sampling-based analysis of a spatially distributed model for liver metabolism at steady state. Multiscale Modeling & Simulation. 2008;7(1):407-431. doi: 10.1137/070682824
- Chalhoub E., Hanson R.W., Belovich J.M. A computer model of gluconeogenesis and lipid metabolism in the perfused liver. Am. J. Physiol. Endocrinol. Metab. 2007;293:E1676-E1686. doi: 10.1152/ajpendo.00161.2007
- Chalhoub E., Xie L, Balasubramanian V, Kim J, Belovich J. A distributed model of carbohydrate transport and metabolism in the liver during rest and high-intensity exercise. Ann. Biomed. Eng. 2007;35:474-491. doi: 10.1007/s10439-006-9217-2
- Coulter N.A. Filtration coefficient of capillaries of the brain. American Journal of Physiology. 1958;195:459-464.
- Kauffman K.J., Prakash P., Edwards J.S. Advances in flux balance analysis. Current Opinion in Biotechnology. 2003;14(5):491-496. doi: 10.1016/j.copbio.2003.08.001
- Lee K., Berthiaume F., Stephanopoulos G.N., Yarmush D.M., Yarmush M.L. Metabolic flux analysis of postburn hepatic hypermetabolism. Metab. Eng. 2000;2:312-327. doi: 10.1006/mben.2000.0160
- Metallo C.M., Walther J.L., Stephanopoulos G. Evaluation of 13C isotopic tracers for metabolic flux analysis in mammalian cells. J. Biotechnol. 2009;144(3):167-174. doi: 10.1016/j.jbiotec.2009.07.010
- Orman M.A., Androulakis I.P., Berthiaume F., Ierapetritou M.G. Metabolic network analysis of perfused livers under fed and fasted states: Incorporating thermodynamic and futile-cycle associated regulatory constraints. Journal of Theoretical Biology. 2012;293:101-110. doi: 10.1016/j.jtbi.2011.10.019
- Orman M.A., Arai K., Yarmush M.L., Androulakis I.P., Berthiaume F., Ierapetritou M.G. Metabolic flux determination in perfused livers by mass balance analysis: Effect of fasting. Biotechnol. Bioeng. 2010;107:825-835. doi: 10.1002/bit.22878
- Orman M.A., Berthiaume F., Androulakis I.P., Ierapetritou M.G. Pathway analysis of liver metabolism under stressed condition. Journal of Theoretical Biology. 2011;272(1):131-140. doi: 10.1016/j.jtbi.2010.11.042
- Orman M.A., Ierapetritou M.G., Androulakis I.P., Berthiaume F. Metabolic response of perfused livers to various oxygenation conditions. Biotechnol. Bioeng. 2011;108:2947-2957. doi: 10.1002/bit.23261
- Ramakrishna R., Edwards J.S., McCulloch A., Palsson B.O. Flux balance analysis of mitochondrial energy metabolism: consequences of systemic stoichiometric constraints. American Journal of Physiology. Regulatory, Integrative and Comparative Physiology. 2001;280:R695-R704.
- Raman K., Chandra N. Flux balance analysis of biological systems: applications and challenges. Briefings in Bioinformatics. 2009;10(4):435-449. doi: 10.1093/bib/bbp011
- Salem J.E., Saidel G.M., Stanley W.C., Cabrera M.E. Mechanistic Model of Myocardial Energy Metabolism under Normal and Ischemic Conditions. Annals of Biomedical Engineering. 2002;30(2):202-216. doi: 10.1114/1.1454133
- Sengupta N., Rose S.T., Morgan J.A. Metabolic flux analysis of CHO cell metabolism in the late non-growth phase. Biotechnol. Bioeng. 2011;108(1):82-92. doi: 10.1002/bit.22890
- Sharma N.S., Ierapetritou M.G., Yarmush M.L. Novel quantitative tools for engineering analysis of hepatocyte cultures in bioartificial liver systems. Biotechnol. Bioeng. 2005;92:321-335. doi: 10.1002/bit.20586
- Stokes A.N. Rapid oxygen entry into unperfused tissue slices: an experimental artefact? Journal of Theoretical Biology. 1976;60(2):473-475. doi: 10.1016/0022-5193(76)90073-4
- Tekir S.D., Cakir T., Ulgen K.O. Analysis of enzymopathies in the human red blood cells by constraint-based stoichiometric modeling approaches. Comp. Biol. Chem. 2006;30(5):327-338. doi: 10.1016/j.compbiolchem.2006.07.001
- Uygun K., Matthew H.W.T., Huang Y. Investigation of metabolic objectives in cultured hepatocytes. Biotechnol. Bioeng. 2007;97:622-637. doi: 10.1002/bit.21237
- Varma A., Boesch B.W., Palsson B.O. Biochemical production capabilities of Escherichia coli. Biotechnology and Bioengineering. 1993;42(1):59-73. doi: 10.1002/bit.260420109
- Yamaguchi Y., Yu Y. M., Zupke C., Yarmush D. M., Berthiaume F., Tompkins R. G., and Yarmush M. L. Effect of burn injury on glucose and nitrogen metabolism in the liver: Preliminary studies in a perfused liver system. Surgery. 1997;121:295-303. doi: 10.1016/S0039-6060(97)90358-5
- Yokoyama T., Banta S., Berthiaume F., Nagrath D., Tompkins R.G., Yarmush M.L. Evolution of intrahepatic carbon, nitrogen, and energy metabolism in a D-galactosamine-induced rat liver failure model. Metab. Eng. 2005;7:88-103. doi: 10.1016/j.ymben.2004.09.003
|
|
|