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2020 – today
- 2023
[j43]Carolin Zitzmann, Christopher Dächert
, Bianca Schmid, Hilde van der Schaar, Martijn van Hemert, Alan S. Perelson, Frank J. M. van Kuppeveld, Ralf Bartenschlager, Marco Binder, Lars Kaderali:
Mathematical modeling of plus-strand RNA virus replication to identify broad-spectrum antiviral treatment strategies. PLoS Comput. Biol. 19(4) (2023)- [j42]Hongyu Miao, Alan S. Perelson, Hulin Wu:
Erratum: On Identifiability of Nonlinear ODE Models and Applications in Viral Dynamics. SIAM Rev. 65(3): 732 (2023) - 2022
- [j41]Ryuichi Kumata, Shoya Iwanami, Katrina B. Mar, Yusuke Kakizoe, Naoko Misawa, Shinji Nakaoka, Yoshio Koyanagi, Alan S. Perelson, John W. Schoggins, Shingo Iwami, Kei Sato:
Antithetic effect of interferon-α on cell-free and cell-to-cell HIV-1 infection. PLoS Comput. Biol. 18(4) (2022) - 2021
- [j40]Katharine Best, Dan H. Barouch, Jérémie Guedj, Ruy M. Ribeiro, Alan S. Perelson:
Zika virus dynamics: Effects of inoculum dose, the innate immune response and viral interference. PLoS Comput. Biol. 17(1) (2021) - [j39]Peter Czuppon, Florence Débarre, António Gonçalves, Olivier Tenaillon, Alan S. Perelson, Jérémie Guedj, François Blanquart:
Success of prophylactic antiviral therapy for SARS-CoV-2: Predicted critical efficacies and impact of different drug-specific mechanisms of action. PLoS Comput. Biol. 17(3) (2021) - [j38]Chad R. Wells, Youfang Cao, David P. Durham, Siddappa N. Byrareddy, Aftab A. Ansari, Nancy H. Ruddle, Jeffrey P. Townsend, Alison P. Galvani, Alan S. Perelson:
Mechanistic basis of post-treatment control of SIV after anti-α4β7 antibody therapy. PLoS Comput. Biol. 17(6) (2021) - [i1]Edward C. Schrom II, Ann Kinzig, Stephanie Forrest, Andrea L. Graham, Simon A. Levin, Carl T. Bergstrom, Carlos Castillo-Chavez, James P. Collins, Rob J. De Boer, Adam Doupé, Roya Ensafi, Stuart I. Feldman, Bryan T. Grenfell, J. Alex Halderman, Silvie Huijben, Carlo C. Maley, Melanie E. Moses, Alan S. Perelson, Charles Perrings, Joshua B. Plotkin, Jennifer Rexford, Mohit Tiwari:
Challenges in cybersecurity: Lessons from biological defense systems. CoRR abs/2107.10344 (2021) - 2020
- [j37]Christiaan H. van Dorp, Jessica M. Conway, Dan H. Barouch, James B. Whitney, Alan S. Perelson:
Models of SIV rebound after treatment interruption that involve multiple reactivation events. PLoS Comput. Biol. 16(10) (2020) - [j36]Laura E. Liao, Jonathan Carruthers, Sophie J. Smither, Simon A. Weller, Diane Williamson, Thomas R. Laws, Isabel García-Dorival, Julian A. Hiscox, Benjamin P. Holder, Catherine A. A. Beauchemin, Alan S. Perelson, Martín López-García, Grant Lythe, John N. Barr, Carmen Molina-París:
Quantification of Ebola virus replication kinetics in vitro. PLoS Comput. Biol. 16(11): 1008375 (2020) - [j35]Carolin Zitzmann, Lars Kaderali, Alan S. Perelson:
Mathematical modeling of hepatitis C RNA replication, exosome secretion and virus release. PLoS Comput. Biol. 16(11): 1008421 (2020)
2010 – 2019
- 2019
- [j34]Jessica M. Conway, Alan S. Perelson, Jonathan Z. Li:
Predictions of time to HIV viral rebound following ART suspension that incorporate personal biomarkers. PLoS Comput. Biol. 15(7) (2019) - 2018
- [j33]Jessica M. Conway, Alan S. Perelson:
Early HIV Infection Predictions: Role of Viral Replication Errors. SIAM J. Appl. Math. 78(4): 1863-1890 (2018) - 2016
- [j32]Tanzy M. T. Love, Sung Yong Park, Elena E. Giorgi, Wendy J. Mack, Alan S. Perelson, Ha Youn Lee:
SPMM: estimating infection duration of multivariant HIV-1 infections. Bioinform. 32(9): 1308-1315 (2016) - [j31]Jessica M. Conway, Alan S. Perelson:
Residual Viremia in Treated HIV+ Individuals. PLoS Comput. Biol. 12(1) (2016) - [j30]Naveen K. Vaidya, Ruy M. Ribeiro, Alan S. Perelson, Anil Kumar:
Modeling the Effects of Morphine on Simian Immunodeficiency Virus Dynamics. PLoS Comput. Biol. 12(9) (2016) - 2015
- [j29]Taina T. Immonen, Jessica M. Conway, Ethan O. Romero-Severson, Alan S. Perelson, Thomas Leitner:
Recombination Enhances HIV-1 Envelope Diversity by Facilitating the Survival of Latent Genomic Fragments in the Plasma Virus Population. PLoS Comput. Biol. 11(12) (2015) - 2014
- [j28]Laetitia Canini, Jessica M. Conway, Alan S. Perelson, Fabrice Carrat:
Impact of Different Oseltamivir Regimens on Treating Influenza A Virus Infection and Resistance Emergence: Insights from a Modelling Study. PLoS Comput. Biol. 10(4) (2014) - [j27]Stanca M. Ciupe, Ruy M. Ribeiro, Alan S. Perelson:
Antibody Responses during Hepatitis B Viral Infection. PLoS Comput. Biol. 10(7) (2014) - [j26]Jessica M. Conway, Alan S. Perelson:
A Hepatitis C Virus Infection Model with Time-Varying Drug Effectiveness: Solution and Analysis. PLoS Comput. Biol. 10(8) (2014) - [j25]Christian L. Althaus, Beda Joos, Alan S. Perelson, Huldrych F. Günthard:
Quantifying the Turnover of Transcriptional Subclasses of HIV-1-Infected Cells. PLoS Comput. Biol. 10(10) (2014) - [j24]Frederik Graw, Ashwin Balagopal, Abraham J. Kandathil, Stuart C. Ray, David L. Thomas, Ruy M. Ribeiro, Alan S. Perelson:
Inferring Viral Dynamics in Chronically HCV Infected Patients from the Spatial Distribution of Infected Hepatocytes. PLoS Comput. Biol. 10(11) (2014) - 2013
- [j23]Libin Rong, Jérémie Guedj, Harel Dahari, Daniel J. Coffield Jr., Micha Levi, Patrick Smith, Alan S. Perelson:
Analysis of Hepatitis C Virus Decline during Treatment with the Protease Inhibitor Danoprevir Using a Multiscale Model. PLoS Comput. Biol. 9(3) (2013) - 2012
- [j22]Kasia A. Pawelek, Giao T. Huynh, Michelle Quinlivan, Ann Cullinane, Libin Rong, Alan S. Perelson:
Modeling Within-Host Dynamics of Influenza Virus Infection Including Immune Responses. PLoS Comput. Biol. 8(6) (2012) - 2011
- [j21]John E. Pearson, Paul Krapivsky, Alan S. Perelson:
Stochastic Theory of Early Viral Infection: Continuous versus Burst Production of Virions. PLoS Comput. Biol. 7(2) (2011) - [j20]Amber M. Smith, Frederick R. Adler, Julie L. McAuley, Ryan N. Gutenkunst, Ruy M. Ribeiro, Jonathan A. McCullers, Alan S. Perelson:
Effect of 1918 PB1-F2 Expression on Influenza A Virus Infection Kinetics. PLoS Comput. Biol. 7(2) (2011) - [j19]Hongyu Miao, Xiaohua Xia, Alan S. Perelson, Hulin Wu:
On Identifiability of Nonlinear ODE Models and Applications in Viral Dynamics. SIAM Rev. 53(1): 3-39 (2011) - 2010
- [j18]Elena E. Giorgi, Bob Funkhouser, Gayathri Athreya, Alan S. Perelson, Bette T. Korber, Tanmoy Bhattacharya:
Estimating time since infection in early homogeneous HIV-1 samples using a poisson model. BMC Bioinform. 11: 532 (2010) - [j17]Rob J. De Boer, Ruy M. Ribeiro, Alan S. Perelson:
Current Estimates for HIV-1 Production Imply Rapid Viral Clearance in Lymphoid Tissues. PLoS Comput. Biol. 6(9) (2010) - [j16]Naveen K. Vaidya, Libin Rong, Vincent C. Marconi, Daniel R. Kuritzkes, Steven G. Deeks, Alan S. Perelson:
Treatment-Mediated Alterations in HIV Fitness Preserve CD4+ T Cell Counts but Have Minimal Effects on Viral Load. PLoS Comput. Biol. 6(11) (2010)
2000 – 2009
- 2009
- [j15]Amy L. Bauer, Catherine Beauchemin, Alan S. Perelson:
Agent-based modeling of host-pathogen systems: The successes and challenges. Inf. Sci. 179(10): 1379-1389 (2009) - [j14]Libin Rong, Alan S. Perelson:
Modeling Latently Infected Cell Activation: Viral and Latent Reservoir Persistence, and Viral Blips in HIV-infected Patients on Potent Therapy. PLoS Comput. Biol. 5(10) (2009) - [j13]Timothy C. Reluga, Harel Dahari, Alan S. Perelson:
Analysis of Hepatitis C Virus Infection Models with Hepatocyte Homeostasis. SIAM J. Appl. Math. 69(4): 999-1023 (2009) - 2008
- [j12]Ha Youn Lee, Alan S. Perelson, Su-Chan Park, Thomas Leitner:
Dynamic Correlation between Intrahost HIV-1 Quasispecies Evolution and Disease Progression. PLoS Comput. Biol. 4(12) (2008) - 2007
- [j11]Libin Rong, Zhilan Feng, Alan S. Perelson:
Mathematical Analysis of Age-Structured HIV-1 Dynamics with Combination Antiretroviral Therapy. SIAM J. Appl. Math. 67(3): 731-756 (2007) - 2006
- [j10]Hwijin Kim, Alan S. Perelson:
Viral and Latent Reservoir Persistence in HIV-1-Infected Patients on Therapy. PLoS Comput. Biol. 2(10) (2006) - 2005
- [j9]Joseph T. Wu, Lawrence M. Wein, Alan S. Perelson:
Optimization of Influenza Vaccine Selection. Oper. Res. 53(3): 456-476 (2005) - [j8]John M. Murray, Alan S. Perelson:
Human Immunodeficiency Virus: Quasi-Species and Drug Resistance. Multiscale Model. Simul. 3(2): 300-311 (2005) - 2004
- [c6]Alan S. Perelson:
An Overview of Computational and Theoretical Immunology. ICARIS 2004: 439-441 - 2003
- [c5]Dennis L. Chao, Miles P. Davenport, Stephanie Forrest, Alan S. Perelson:
Stochastic Stage-structured Modeling of the Adaptive Immune System. CSB 2003: 124-131
1990 – 1999
- 1999
- [j7]Alan S. Perelson, Frederik W. Wiegel:
Some design principles for immune system recognition. Complex. 4(5): 29-37 (1999) - [j6]Alan S. Perelson, Patrick W. Nelson:
Mathematical Analysis of HIV-1 Dynamics in Vivo. SIAM Rev. 41(1): 3-44 (1999) - 1996
- [j5]Martijn A. Huynen, Alan S. Perelson, W. A. Vieira, Peter F. Stadler:
Base Pairing Probabilities in a Complete HIV-1 RNA. J. Comput. Biol. 3(2): 253-274 (1996) - 1995
- [c4]Ron R. Hightower, Stephanie Forrest, Alan S. Perelson:
The Evolution of Emergent Organization in Immune System Gene Libraries. ICGA 1995: 344-350 - 1994
- [c3]Stephanie Forrest, Alan S. Perelson, Lawrence Allen, Rajesh Cherukuri:
Self-nonself discrimination in a computer. S&P 1994: 202-212 - 1993
- [j4]Robert E. Smith, Stephanie Forrest, Alan S. Perelson:
Searching for Diverse, Cooperative Populations with Genetic Algorithms. Evol. Comput. 1(2): 127-149 (1993) - [j3]Stephanie Forrest, Robert E. Smith, Brenda Javornik, Alan S. Perelson:
Using Genetic Algorithms to Explore Pattern Recognition in the Immune System. Evol. Comput. 1(3): 191-211 (1993) - 1992
- [c2]Robert E. Smith, Stephanie Forrest, Alan S. Perelson:
Population Diversity in an Immune System Model: Implications for Genetic Search. FOGA 1992: 153-165 - 1990
- [c1]Stephanie Forrest, Alan S. Perelson:
Genetic Algorithms and the Immune System. PPSN 1990: 320-325
1970 – 1979
- 1976
- [j2]Alan S. Perelson:
Review of "System Dynamics: A Unified Approach" by Dean C. Karnopp and Ronald C. Rosenberg. IEEE Trans. Syst. Man Cybern. 6(10): 724 (1976) - [j1]Alan S. Perelson:
Review of "Introduction to Bond Graphs and Their Applications" by J. U. Thoma. IEEE Trans. Syst. Man Cybern. 6(11): 797-798 (1976)
Coauthor Index
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