Updated: Jun 8, 2007

 

I. PAPERS

 

         34.            Dahari H., Markatou M., Zeremski M., Haller I., Ribeiro R. M., Licholai T., Perelson A. S., Talal A. H. 2007 Early ribavirin pharmacokinetics in HIV/HCV co-infected patients during treatment with pegylated interferon and ribavirin. J. Hepatol. (in press)

 

         33.            Dahari H., Ribeiro R. M., Perelson A. S. 2007 Triphasic decline in HCV RNA during antiviral therapy. Hepatology (in press)

 

         32.            Ciupe S. M., Ribeiro, R. M. et al. 2007 The role of cells refractory to productive infection in acute hepatitis B viral dynamics. Proc Natl Acad Sci USA 104: 5050-5055

 

          31.            Dahari H., Ribeiro R. M., Rice C.M., Perelson A.S. 2007 Mathematical modeling of subgenomic hepatitis C virus replication in Huh-7 cells. J Virol 81: 750-760

 

          30.            Wang Z., Metcalf B., Ribeiro R. M. et al. 2006 Th-1-Type Cytotoxic CD8+ T-Lymphocyte Responses to Simian Immunodeficiency Virus (SIV) Are a Consistent Feature of Natural SIV Infection in Sooty Mangabeys. J Virol 80: 2771-2783

 

          29.            Davenport, M. P., Zhang, L., Shiver, J.W., Casimiro, D. R., Ribeiro, R. M. & Perelson, A. S. 2005 Influence of peak viral load on the extent of CD4+ T cell depletion in SHIV infection. JAIDS 41: 259-265

 

          28.            Talal, A. H., Ribeiro, R. M., et al. 2005 Pharmacodynamics of PEG IFN-alfa differentiate HIV/HCV coinfected sustained viral responders from non-responders Hepatol 43: 943-953

 

          27.            Davenport, M. P., Zhang, L., Bgchi, A., Fridman, A., Fu, T. M., Schleif, W., Shiver, J. W., Ribeiro, R. M. & Perelson, A. S. 2005 High potency HIV vaccination leads to delayed and reduced CD8+ T cell expansion, but nevertheless improved viral control. J.Virol. 79: 10059-10062

 

          26.            Ribeiro, R. M. et al. 2005 Naïve and memory cell turnover as drivers of CCR5 to CXCR4-tropism switch in HIV-1: Implications for therapy. J. Virol. 80: 802-809

 

          25.            Layden-Almer J. E., Kuiken C., Ribeiro R. M., et al. 2005 HCV NS5A 1a pre-treatment sequence variation and viral kinetics in African Americans and Caucasians. J. Inf. Dis. 192: 1078-1087

 

          24.            Arron, S. T., Ribeiro, R. M., et al. 2005 Impact of thymectomy on the peripheral T-cell pool in rhesus macaque before and after infection with Simian Immunodeficiency Virus. Eur. J. Immunol. 35: 46-55

 

          23.            Davenport, M. P., Chao, D. L., Ribeiro, R. M. & Perelson, A. S. 2004 Controlling the HIV epidemic with a non-sterilising vaccine. J. Virol. 78: 11340-11351

 

          22.            Davenport, M. P., Ribeiro, R. M., Perelson, A. S. 2004 Kinetics of virus specific CD8+ T cells and the control of HIV infection. J. Virol. 78: 10096-10103

 

          21.            Powers, K. A., Ribeiro, R. M., Patel, K., Pianko, S., Nyberg, L., Pockros, P., Conrad, A., McHutchison, J., Perelson, A. S. 2006 Modeling the kinetics of post-transplantation liver reinfection with hepatitis C virus. Liver Transpl 12: 207-216

 

          20.            Zhang, L., Ribeiro, R. M., et al. 2004 Effects of antibody on viral kinetics in SHIV infection: Implications for vaccination. J. Virol. 78: 5520-5522

 

          19.            Elson, K., Ribeiro, R. M., Perelson, A. S., Simmons, A. & Speck, P. 2004 The lifespan of satellite cells in murine sensory ganglia estimated by uptake of bromodeoxyuridine. Exp. Neurol. 186: 99-103

 

          18.            Talal, A. H., Shata, M. T., Markatou, M., Dorante, G., Chadburn, A., Kock, R., Neumann, A. U., Ribeiro, R. M., Perelson, A. S. 2004 Virus Dynamics and Immune Responses During Treatment in Patients Co-infected with Hepatitis C and Human Immunodeficiency Viruses. JAIDS 35: 103-113

 

          17.            Ramratnam, B., Ribeiro, R.M. et al. 2004 Intensification of antiretroviral therapy accelerates the decay of the latent reservoir of HIV-1 and decreases but does not eliminate ongoing virus replication. JAIDS 35: 33-37

 

          16.            Powers, K. A., Dixit, N. M., Ribeiro, R. M., Golia, P., Talal, A. H., Perelson, A. S. 2003 Modeling of viral and drug kinetics: HCV treatment with pegylated interferon alfa-2b. Sem. Liv. Dis. 23 (suppl. 1): 13-18

 

          15.            Torriani, F. J., Ribeiro, R. M., et al. 2003 HCV and HIV viral dynamics during HCV treatment in HCV/HIV co-infection. J. Inf. Dis. 188: 1498-1507

 

          14.            Ribeiro, R. M. et al. 2003 Dynamics of alanine aminotransferase during hepatitis C virus treatment. Hepatology 38: 509-517

 

          13.            Altes, H. K., Ribeiro, R. M. & De Boer, R. 2003 The race between initial T helper expansion and virus growth upon HIV infection influences polyclonality of the response and viral setpoint. Proc. Roy. Soc. Lon. B 270: 1349-1358

 

          12.            Layden-Almer, J. E., Ribeiro R. M. et al. 2003 Viral dynamics and response differences in HCV infected African American and White patients treated with IFN and ribavirin. Hepatology 37: 1343-1350

 

          11.            Ribeiro R. M., et al. 2002 In vivo dynamics of T-cell activation, proliferation and death in HIV-1 infection: why are CD4+ but not CD8+ T-cells depleted? Proc. of Natl. Acad. Sci. USA 99: 15572-15577

 

          10.            Lewin, S.R., Ribeiro, R.M., et al. 2002 Dynamics of T-cell TCR excision circles differ after treatment of acute and chronic HIV infection. J. Immunol. 169: 4657-4666

 

          9.              Rosen, H.R., Ribeiro, R.M. et al. 2002 Early hepatitis C viral kinetics correlate with long-term outcome in patients receiving high dose induction followed by combination interferon and ribavarin therapy. J. Hepatol. 37: 124-130

 

          8.              Ribeiro, R.M. et al. 2002 Modeling deuterated glucose labeling of T-lymphocytes. Bull. Math. Biol. 64: 385-405

 

          7.              Mohri, H., Perelson, A.S., Tung, K., Ribeiro, R.M. et al. 2001 Increased turnover of T-lymphocytes in HIV-1 infection and its reduction by antiretroviral therapy. J. Exp. Med. 194, 1277-1287

 

          6.              Lewin, S., Ribeiro, R. M. et al. 2001 Analysis of HBV viral load decline under potent therapy: complex decay profiles observed. Hepatology 34, 1012-1020

 

          5.              Roberts, D. E. & Ribeiro, R. M. 2001 Comparison of different treatment regimens for the emergence of new resistance under therapy. J. AIDS 27, 331-335

 

          4.              Ribeiro, R.M. & Bonhoeffer S. 2000 Production of resistant HIV mutants during antiretroviral therapy. Proc. Natl. Acad. Sci. USA 97, 7681-7686

 

          3.              Callaway, D., Ribeiro, R.M. & Nowak, M.A. 1999 Phenotypic switching and disease progression in HIV-1. Proc. Royal Soc. B 266, 2523-2530

 

          2.              Ribeiro, R.M. & Bonhoeffer, S. 1999 A stochastic model for primary HIV infection: Optimal timing of therapy. AIDS 13, 351-357

 

          1.              Ribeiro, R.M., Bonhoeffer, S. & Nowak, M.A. 1998 The frequency of resistant mutant virus before antiviral therapy. AIDS 12, 461-465

 

 

II. REVIEWS

 

         7.              Ribeiro R. M. 2007 Dynamics of CD4+ T cells in HIV-1 Infection. Immunol and Cell Biol (in press)

 

         6.              Ribeiro R. M. & Perelson A. S. 2007 Determining thymic output quantitatively: Using models to interpret experimental T cell receptor excision circle (TREC) data. Immunol. Rev. 216: 21-34

 

         5.              Davenport M. P., Ribeiro R. M., Zhang L., Wilson D. P., Perelson A. S. 2007 A quantitative understanding of the mechanisms and limitations of immune control of HIV. Immunol. Rev. 216: 164-175

 

          4.              Perelson, A. S. & Ribeiro, R. M. 2004 Hepatitis B Virus Kinetics and Mathematical Modeling. Sem. Liv. Dis. 24 (supp. 1): 11-16

 

          3.              Di Mascio, M., Ribeiro, R. M., Markowitz, M., Ho, D. D. & Perelson, A. S. 2004 Modeling the long-term control of viremia in HIV-1 infected patients treated with antiretroviral therapy. Math. Biosc. 188: 47-62

 

          2.              Layden, T. J., Layden, J. E., Ribeiro, R. M. & Perelson, A. S. 2003 Mathematical Modeling of Viral Kinetics: A Tool to Understand and Optimize Therapy. Clin. Liver Dis. 7: 163-178

 

          1.              Ribeiro, R.M. et al. 2002 Dynamics of hepatitis B virus infection. Microbes & Infection 4: 829-835

 

 

III. EDITORIALS

 

          2.              Perelson, A. S. & Ribeiro, R. M. 2005 Mutagenic effects of ribavirin in vivo. J. Hepatol. 43: 553-555

 

          1.              Ribeiro, R.M. & Perelson A.S. 2002 Hepatitis B virus viral dynamics: effects of drug dose and baseline alanine aminotransferase. J. Hepatol. 37: 277-279

 

 

IV. BOOK CHAPTERS AND PROCEEDINGS PAPERS

 

         5.              Ribeiro R. M., Perelson A. S., Chao D. L., Davenport M. P. 2007 HIV epidemiology and the impact of nonsterilizing vaccines. In “BIOMAT 2006” Eds. Mondaini R. P. & Dilao R, World Scientific, Singapore: (in press)

 

          4.              Ribeiro R. M. 2006 Modeling the in vivo dynamics of viral infections. In “BIOMAT 2005” Eds. Mondaini R. P. & Dilao R, World Scientific, Singapore: 153-170

 

          3.              Ribeiro, R. M., Dixit, N. M., Perelson, A. S. 2006 Modelling the in vivo growth rate of HIV: implications for vaccination. In “Multidisciplinary Approaches to Theory in Medicine”, Ed. Paton, R. & McNamara, L. A., Elsevier, Amsterdam: 231-246

 

          2.              Ribeiro R. M., Powers K. A., Talal A. H., Perelson A. S. 2005 Modeling the viral dynamics of HCV in patients treated with pegylated interferon alpha 2b. In “Framing the Knowledge of Viral Hepatitis” Eds. Schinazi R. F. & Schiff E. R., IHL Press, College Park: 407-420

 

          1.              Ribeiro, R. M. & Perelson, A. S. 2004 The Analysis of HIV Dynamics Using Mathematical Models. In “AIDS and other Manifestations of HIV Infection”, Ed. Wormser, G. P. 4th Edition, Elsevier.