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Guedj J, Rotman Y, Cotler S.J, Schmid P, Albrecht J, Haynes-Williams V, Liang T.J, Hoofnagle J.H, Heller T, Dahari H. Understanding early hepatitis D virus and hepatitis B surface antigen kinetics during pegylated interferon-alpha therapy via mathematical modeling. Hepatology (2014); 60(6):1902-10; [Pubmed]


Rong L, Guedj J, Dahari H, Perelson AS. Treatment of hepatitis C with an interferon-based lead-in phase: A perspective from mathematical modeling. Antiviral Therapy (2014) 19:469-477; [Pubmed]

Rotman Y, Noureddin M, Feld JJ, Guedj J, Witthaus M, Han H, Park Y, Park SH, Heller T, Ghany MG, Doo E, Koh C,  Abdalla A, Gara N, Sarkar S, Thomas E, Ahlenstiel G, Edlich B, Titerence R, Hogdal L,  Rehermann B, Dahari H, Perelson AS, Hoofnagle JH and Liang TJ.  Effect of Ribavirin on Viral Kinetics and Liver Gene Expression in Chronic Hepatitis C. Gut (2014) Jan;63(1):161-9; [Pubmed]

Dahari H & Cotler SJ.  Individualized treatment for patients with low HCV load (genotype 1): A viral kinetic approach. Hepatology (2014) Jun;59(6):2422-3; [Pubmed]



Guedj J*, Dahari H*, Rong L, Sansone N, Nettles RE, Cotler SJ, Layden JE, Uprichard SL,  Perelson AS. Modeling shows that the NS5A inhibitor daclatasvir has two modes of action and yields a new estimate of the hepatitis C virus half-life. Proc Natl Acad Sci U S A. (2013) Mar 5;110(10):3991-6 (* equal contributors). Selected by Faculty of 1000; [Pubmed]


 Zhang J, Lipton HL, Perelson AS, Dahari H. Modeling the acute and chronic phases of Theiler murine encephalomyelitis virus infection. J Virology (2013) April;87(7):4052-4059; [Pubmed]


Gutfraind A, Boodram B, Ouellet LJ, Prachand N, Perelson AS, Feinstone S, Novak RM, Mniszewski SM, Del Valle SY, Dahari H, Major M. Implementing a data-driven model of hepatitis C infections in metropolitan Chicago: a concept paper. Accepted at the Proceedings of the 8th INFORMS Workshop on Data Mining and Health Informatics 2013.


Rong L*, Guedj J*, Dahari H*, Smith P, Perelson AS. Multiscale modeling approach predicts that the protease inhibitor danoprevir blocks several distinct stages of the HCV replication in vivo. PLoS Comp Bio (2013) Mar;9(3):e1002959 (* equal contributors); [Pubmed]

Guedj J, Dahari H, Uprichard SL, Perelson AS. The HCV NS5A inhibitor daclatasvir has dual mode of action and reveals a shorter HCV half-life estimate. Expert Rev Gastroentrol Hepatol. (2013) Jul;7(5):397-9; [Pubmed]

Polyak SJ, Oberlies NH, Pécheur E,  Dahari H, Ferenci P, Pawlotsky JM. Silymarin for HCV infection. Antiviral Therapy (2013) 18:141-147; [Pubmed]

Dahari H, Cotler SJ, Layden TJ, Perelson AS. Understanding triphasic HCV decline during treatment in the era of IL28B polymorphisms and direct acting antiviral agents via mathematical modeling. J Hepatology (2013) vol. 58:831–843; [Pubmed]



Guedj J*, Dahari H*, Pohl RT, Ferenci P, Perelson AS Understanding silibinin's modes of action against HCV using viral kinetic modeling. J Hepatology (2012) 56: 1019-1024 (*equal contributors); [Pubmed]


Guedj J, Dahari H, Shudo E, Smith P, Perelson AS. Hepatitis C viral kinetics with the nucleoside polymerase inhibitor mericitabine (RG7128). Hepatology (2012) 55(4):1030-7; [Pubmed]



Araújo ESA*, Dahari H*, Cotler SJ, Layden TJ, Neumann AU, Melo CE, Tatsch FF, Barone AA. Pharmacodynamics of PEG-IFN alpha-2a and HCV response as a function of IL28B polymorphism in HIV/HCV co-infected patients. J Acquir Immune Defic Syndr (2011); 56:95–99  (* equal contributors); [Pubmed]

Evaldo S.A. Araújo, Harel Dahari , Avidan U.  Neumann , Norma de Paula Cavalheiro, Carlos Eduardo Melo,Evandro Sobroza de Melo, Thomas J. Layden, Scott J. Cotler, Antônio Alci Barone. Very early prediction of response to HCV treatment with peg-IFN-alfa-2a and ribavirin in HIV/HCV coinfected patients. J Viral Hepatitis (2011); Apr;18(4):e52-60; [Pubmed]

Dahari H, Guedj J, Perelson AS, Layden TJ. Hepatitis C viral kinetics in the era of direct acting antiviral agents and IL28B. Current Hepatitis Reports (2011) Volume 10, Number 3, 214-227; [Pubmed]

Dahari H, Guedj J, Perelson AS. Silibinin’s mode of action against HCV: A controversy yet to be resolved. Hepatology (2011) Aug;54(2):749; [Pubmed]


Guedj J, Dahari H, Perelson AS. Understanding the nature of early HCV RNA blips and the use of mathematical modeling of viral kinetics during IFN-based therapy. Proc Natl Acad Sci U S A. (2011) Jul 19;108(29):E302; [Pubmed]


Dahari H, Rong L, Layden TJ, Cotler SJ. Hepatocyte proliferation and hepatitis C virus (HCV) kinetics. Clinical Pharmacology & Therapeutics (2011) Mar;89(3):353-4; [Pubmed]


L. Rong, H. Dahari, R.M. Ribeiro, A.S. Perelson. Rapid emergence of hepatitis C virus protease inhibitor resistance. Science Translational Medicine (AAAS) (2010) 2, 30ra32; [Pubmed]


Harel Dahari, Stephen Feinstone, Marian Major. Quantitative evaluation of HCV vaccine success: a meta-analysis. Gastroenterology (2010); Sep 139:965-974; [Pubmed]


Harel Dahari, Evaldo S. Affonso de Araujo, Bart L. Haagmans, Thomas J. Layden, Scott J. Cotler, Antonio A. Barone, Avidan U. Neumann. Pharmacodynamics of PEG-IFN alpha-2a in HIV/HCV co-infected patients: Implications for treatment outcomes. J Hepatology (2010); 53: 460-467. (see Editorial on pages 418-420); [Pubmed]


Ali Sabahi, Katherine A. Marsh, Harel Dahari, Peter Corcoran, Jennifer M. Lamora, Xuemei Yu, Robert F. Garry, Susan L. Uprichard. The rate of hepatitis C virus infection initiation in vitro is directly related to particle density. Virology (2010) Nov 10;407(1):110-9; [Pubmed]

Marianna Halasi, Huiping Zhao, Harel Dahari, Uppoor G. Bhat, Erick B. Gonzalez, Aleksander V. Lyubimov, Debra A. Tonetti, Andrei L. Gartel. Thiazole antibiotics against breast cancer. Cell Cycle 2010; Mar; 9(6):1214-1217; [Pubmed


Neumann AU, Phillips S, Levine I, Ijaz S, Dahari H, Eren R, Dagan S, Naoumov NV. Novel mechanism of antibodies to hepatitis B virus in blocking viral particle release from cells. Hepatology (2010); Sep;52(3):875-85; [Pubmed]

Guedj J, Rong R, Dahari H, Perelson AS. A perspective on modeling hepatitis C virus infection. J Viral Hepatitis (2010); 17, 825–833; [Pubmed]



Dahari H, Sainz Jr. B, Perelson AS, Uprichard SL.  Modeling subgenomic HCV RNA kinetics during interferon-a treatment. J Virology (2009) Jul;83(13):6383-90; [Pubmed]

Burg D, Libin R, Neumann AU, Dahari H. Mathematical modeling of viral kinetics under immune control during primary HIV-1 infection. Journal Theoretical Biology (2009) Aug 21;259(4):751-9; [Pubmed]


Dahari H, Shudo E, Cotler SJ, Layden TJ, Perelson AS. Modeling HCV kinetics: The relationship between the infected cell loss rate and the final slope of viral decay. Antiviral Therapy (2009) 14(3):459-64; [Pubmed]


Dahari H, Layden-Almer JE, Kallwitz E, Ribeiro RM, Cotler SJ, Layden TJ, Perelson AS. A mathematical model of hepatitis C virus dynamics in patients with high baseline viral loads or advanced liver disease. Gastroenterology (2009) Apr;136(4):1402-9; [Pubmed]


Dahari H, Shudo E, Ribeiro RM, Perelson AS. Modeling complex decay profiles of hepatitis B virus during antiviral therapy. Hepatology (2009) Jan;49(1):32-38; [Pubmed]


Dahari H, Shudo E, Ribeiro RM, Perelson AS. Mathematical modeling of HCV infection and treatment. Hepatitis C Protocols. 2nd ed. NJ: Humana Press (2009): 439-453.  Also published in Methods Mol Biol. 2009;510:439-53; [Pubmed]

Reluga T, Dahari H, Perelson AS. Analysis of hepatitis C virus infection models with hepatocyte homeostasis. SIAM Journal on Applied mathematics (2009) 69(4): 999-1023; [Pubmed]

Dahari H, Cotler SJ, Layden TJ, Perelson AS. Hepatitis B virus clearance rate estimates. Hepatology (2009) Apr 2;49(5):1779-1780; [Pubmed]


Dahari H, Layden-Almer JE, Perelson AS, Layden TJ. Hepatitis C viral kinetics in special populations. Current Hepatitis Reports (2008) Volume 7, Issue 3: 97-105; [Pubmed]                


Dahari H, Ribeiro RM, Perelson AS. Triphasic decline of HCV RNA during antiviral therapy. Hepatology (2007) Jul;46(1):16-21. (Selected by Faculty of 1000 Biology: Factor 6.0 = Must Read); [Pubmed]

Dahari H, Lo A, Ribeiro RM, Perelson AS. Modeling HCV Dynamics: Liver regeneration and critical drug efficacy. Journal Theoretical Biology (2007) Jul 21;247(2):371-81; [Pubmed]

Dahari H, Markatou M, Zeremski M, Haller I, Ribeiro RM, Licholai T, Perelson AS, Talal AH. Early ribavirin pharmacokinetics, HCV RNA and alanine aminotransferase kinetics in HIV/HCV co-infected patients during treatment with pegylated Interferon and ribavirin. J Hepatology (2007) July 47(1):23-30. (see Editorial July 47(1):1-3); [Pubmed]


Dahari H, Ribeiro RM, Rice CM, Perelson AS. Mathematical modeling of subgenomic hepatitis C viral replication in Huh-7 cells. J Virology (2007) Jan;81(2):750-60; [Pubmed]

Dahari H & Perelson AS. Hepatitis C virus RNA kinetics: Drug efficacy and the rate of HCV-infected cells loss. World Journal Gastroenterology (2007):13(21):3020-21; [Pubmed]


Dahari H & Perelson AS. Hepatitis C virus kinetics in chimeric mice during antiviral therapy. Hepatology  (2007) Oct 12;46(6):2048-2049; [Pubmed]


Dahari H, Forns X, Neumann AU, Perelson AS. The extrahepatic contribution to HCV plasma viremia. J Hepatology (2006) Oct 45(4):626-7; [Pubmed]


Dahari H, Major M, Zhang X, Mihalik K, Rice CM, Perelson AS, Feinstone SM, Neumann AU. Mathematical Modeling of Primary Hepatitis C Infection: Non-cytolytic clearance and early blockage of virion production. Gastroenterology (2005); 128(4): 1056-1066; [Pubmed]


Dahari H, Feliu A, Garcia-Retortillo M, Forns X, Neumann AU. Second Hepatitis C Compartment Indicated by Viral Dynamics during Liver Transplantation. J Hepatology (2005) April 42(4): 491-498. (see Editorial April 42(4):441-443); [Pubmed]


Major ME, Dahari H, Mihalik K, Puig M, Rice CM, Neumann AU, Feinstone SM. Hepatitis C Virus Kinetics and Host Responses Associated with Disease and Outcome of Infection. Hepatology (2004)  Jun;39(6):1709-20; [Pubmed]


Pawlotsky JM, Dahari H, Neumann AU, Hezode C, Germanidis G, Lonjon I, Castera L, Dhumeaux D. Antiviral Action of Ribavirin in Chronic Hepatitis C. Gastroenterology (2004) 126(3):703-14; [Pubmed]



Bouvier-Alias M, Patel K, Dahari H, Beaucourt S, Larderie P, Blatt L, Hezode C, Picchio G, Dhumeaux D, Neumann AU, McHutchison JG, Pawlotsky JM.. Clinical utility of total HCV core antigen quantification: a new indirect marker of HCV replication. Hepatology (2002) 36(1): 211-218; [Pubmed]


Neumann AU, Lam NP, Dahari H, Davidian M, Wiley TE, Mika BP, Perelson AS, Layden TJ. Differences in viral dynamics between genotypes 1 and 2 of hepatitis C virus. J Infectious Diseases. (2000) July 182(1):28-35; [Pubmed]



Neumann AU, Lam NP, Dahari H, Gretch DR, Wiley TE, Layden TJ, Perelson AS. Hepatitis C viral dynamics in vivo and the antiviral efficacy of interferon-alpha therapy. Science (AAAS) (1998) 282:103-7; [Pubmed]


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