A probability cellular automaton model for hepatitis B viral infections

Biochemical and Biophysical Research Communications

Volumn 342, Issue 2, 2006, Pages 605-610

  Xiao, Xuan ^a,b   Shao, Shi Huang ^a   Chou, Kuo Chen ^a,c  

^a DONGHUA UNIVERSITY   (China)

^b JINGDEZHEN CERAMIC INSTITUTE   (China)

^c GORDON LIFE SCIENCE INSTITUTE   (United States)

Author keywords

Cellular automaton model; Dead cell; Dynamical process; HBV infection; Healthy cell; Infected cell; Spatial inhomogeneity

Indexed keywords

ARTICLE; CELL DEATH; CLINICAL FEATURE; HEPATITIS B; LIVER CELL; MATHEMATICAL MODEL; PRIORITY JOURNAL; VIRUS INFECTION;

ANIMALS; CELL COUNT; COMPUTATIONAL BIOLOGY; COMPUTER SIMULATION; HEPATITIS B; HEPATITIS B VIRUS; HEPATOCYTES; HUMANS; MODELS, BIOLOGICAL; PROBABILITY; VIRUS REPLICATION;

HEPATITIS B VIRUS;

EID: 33344460430     PISSN: 0006291X     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.bbrc.2006.01.166     Document Type: Article

References (38)

1. M. Picardi, F. Pane, C. Quintarelli, A. De Renzo, A. Del Giudice, B. De Divitiis, M. Persico, R. Ciancia, F. Salvatore, and B. Rotoli Hepatitis B virus reactivation after fludarabine-based regimens for indolent non-Hodgkin's lymphomas: high prevalence of acquired viral genomic mutations Haematologica 88 2003 1296 1303
2. I.W. Althaus, J.J. Chou, A.J. Gonzales, M.R. Diebel, K.C. Chou, F.J. Kezdy, D.L. Romero, P.A. Aristoff, W.G. Tarpley, and F. Reusser Steady-state kinetic studies with the non-nucleoside HIV-1 reverse transcriptase inhibitor U-87201E J. Biol. Chem. 268 1993 6119 6124
3. I.W. Althaus, A.J. Gonzales, J.J. Chou, M.R. Diebel, K.C. Chou, F.J. Kezdy, D.L. Romero, P.A. Aristoff, W.G. Tarpley, and F. Reusser The quinoline U-78036 is a potent inhibitor of HIV-1 reverse transcriptase J. Biol. Chem. 268 1993 14875 14880
4. I.W. Althaus, J.J. Chou, A.J. Gonzales, M.R. Diebel, K.C. Chou, F.J. Kezdy, D.L. Romero, P.A. Aristoff, W.G. Tarpley, and F. Reusser Kinetic studies with the nonnucleoside HIV-1 reverse transcriptase inhibitor U-88204E Biochemistry 32 1993 6548 6554
5. K.C. Chou, F.J. Kezdy, and F. Reusser Review: steady-state inhibition kinetics of processive nucleic acid polymerases and nucleases Anal. Biochem. 221 1994 217 230
6. G.J. Alexander Immunology of hepatitis B virus infection Br. Med. Bull. 46 1990 354 367
7. A.U. Neumann, N.P. Lam, H. Dahari, D.R. Gretch, T.E. Wiley, T.J. Layden, and A.S. Perelson Hepatitis C viral dynamics in vivo and the antiviral efficacy of interferon-alpha therapy Science 282 1998 103 107
8. R.M. Zorzenon dos Santos, and S. Coutinho Dynamics of HIV infection: a cellular automata approach Phys. Rev. Lett. 87 2001 168102
9. J.L. Dienstag, J. Cianciara, S. Karayalcin, K.V. Kowdley, B. Willems, S. Plisek, M. Woessner, S. Gardner, and E. Schiff Durability of serologic response after lamivudine treatment of chronic hepatitis B Hepatology 37 2003 748 755
10. M.A. Nowak, S. Bonhoeffer, A.M. Hill, R. Boehme, H.C. Thomas, and H. McDade Viral dynamics in hepatitis B virus infection Proc. Natl. Acad. Sci. USA 93 1996 4398 4402
11. M. Tsiang, J.F. Rooney, J.J. Toole, and C.S. Gibbs Biphasic clearance kinetics of hepatitis B virus from patients during adefovir dipivoxil therapy Hepatology 29 1999 1863 1869
12. S.A. Whalley, J.M. Murray, D. Brown, G.J. Webster, V.C. Emery, G.M. Dusheiko, and A.S. Perelson Kinetics of acute hepatitis B virus infection in humans J. Exp. Med. 193 2001 847 854
13. G.K. Lau, M. Tsiang, J. Hou, S. Yuen, W.F. Carman, L. Zhang, C.S. Gibbs, and S. Lam Combination therapy with lamivudine and famciclovir for chronic hepatitis B-infected Chinese patients: a viral dynamics study Hepatology 32 2000 394 399
14. L.M. Wolters, B.E. Hansen, H.G. Niesters, R.S. Levi-Drummer, A.U. Neumann, S.W. Schalm, and R.A. de Man The influence of baseline characteristics on viral dynamic parameters in chronic hepatitis B patients treated with lamivudine J. Hepatol. 37 2002 253 258
15. R.M. Ribeiro, A. Lo, and A.S. Perelson Dynamics of hepatitis B virus infection Microbes Infect. 4 2002 829 835
16. G. Lubec, L. Afjehi-Sadat, J.W. Yang, and J.P. John Searching for hypothetical proteins: theory and practice based upon original data and literature Prog. Neurobiol. 77 2005 90 127
17. K.C. Chou, and S.P. Jiang Studies on the rate of diffusion-controlled reactions of enzymes Sci. Sin. 17 1974 664 680
18. K.C. Chou The kinetics of the combination reaction between enzyme and substrate Sci. Sin. 19 1976 505 528
19. K.C. Chou, and G.P. Zhou Role of the protein outside active site on the diffusion-controlled reaction of enzyme J. Am. Chem. Soc. 104 1982 1409 1413
20. G.P. Zhou, T.T. Li, and K.C. Chou The flexibility during the juxtaposition of reacting groups and the upper limits of enzyme reactions Biophys. Chem. 14 1981 277 281
21. G.Q. Zhou, and W.Z. Zhong Diffusion-controlled reactions of enzymes. A comparison between Chou's model and Alberty-Hammes-Eigen's model Eur. J. Biochem. 128 1982 383 387
22. S. Wolfram Cellular automation as models of complexity Nature 311 1984 419 424
23. S. Wolfram A New Kind of Science 2002 Wolfram Media Champaign, IL
24. C. Beauchemin, J. Samuel, and J. Tuszynski A simple cellular automaton model for influenza A viral infections J. Theor. Biol. 232 2005 223 234
25. X. Xiao, S. Shao, Y. Ding, Z. Huang, X. Chen, and K.C. Chou Using cellular automata to generate Image representation for biological sequences Amino Acids 28 2005 29 35
26. X. Xiao, S. Shao, Y. Ding, Z. Huang, X. Chen, and K.C. Chou An application of gene comparative image for predicting the effect on replication ratio by HBV virus gene missense mutation J. Theor. Biol. 235 2005 555 565
27. X. Xiao, S.H. Shao, Y.S. Ding, Z.D. Huang, K.C. Chou, Using cellular automata images and pseudo amino acid composition to predict protein sub-cellular location, Amino Acids, Online first: DOI doi:10.1007/s00726-005- 0225-6 (2005).
28. M. Wang, J.S. Yao, Z.D. Huang, Z.J. Xu, G.P. Liu, H.Y. Zhao, X.Y. Wang, J. Yang, Y.S. Zhu, and K.C. Chou A new nucleotide-composition based fingerprint of SARS-CoV with visualization analysis Med. Chem. 1 2005 39 47
29. W.T. London, and B.S. Blumberg A cellular model of the role of hepatitis B virus in the pathogenesis of primary hepatocellular carcinoma Hepatology 2 1982 10S 14S
30. R.J. Payne, M.A. Nowak, and B.S. Blumberg The dynamics of hepatitis B virus infection Proc. Natl. Acad. Sci. USA 93 1996 6542 6546
31. V.M. Factor, S.A. Radaeva, and S.S. Thorgeirsson Origin and fate of oval cells in dipin-induced hepatocarcinogenesis in the mouse Am. J. Pathol. 145 1994 409 422
32. L.G. Guidotti, R. Rochford, J. Chung, M. Shapiro, R. Purcell, and F.V. Chisari Viral clearance without destruction of infected cells during acute HBV infection Science 284 1999 825 829
33. F.V. Chisari, and C. Ferrari Hepatitis B virus immunopathogenesis Annu. Rev. Immunol. 13 1995 29 60
34. N.V. Naoumov, R. Schneider, T. Grotzinger, M.C. Jung, S. Miska, G.R. Pape, and H. Will Precore mutant hepatitis B virus infection and liver disease Gastroenterology 102 1992 538 543
35. C. Seeger, and W.S. Mason Hepatitis B virus biology Microbiol. Mol. Biol. Rev. 64 2000 51 68
36. A.S. Perelson Modelling viral and immune system dynamics Nat. Rev. Immunol. 2 2002 28 36
37. G.I. Marchuk, R.V. Petrov, A.A. Romanyukha, and G.A. Bocharov Mathematical model of antiviral immune response. I. Data analysis, generalized picture construction and parameters evaluation for hepatitis B J. Theor. Biol. 151 1991 1 40
38. G.I. Marchuk, A.A. Romanyukha, and G.A. Bocharov Mathematical model of antiviral immune response. II. Parameters identification for acute viral hepatitis B J. Theor. Biol. 151 1991 41 69