Alan S. Perelson

Publication Activity (10 Years)

Years Active: 1976-2023
Publications (10 Years): 15

Top Topics

Hepatitis C Virus

Immune Response

Spatial Distribution

Top Venues

PLoS Comput. Biol.

Publications

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)
Hongyu Miao, Alan S. Perelson, Hulin Wu
Erratum: On Identifiability of Nonlinear ODE Models and Applications in Viral Dynamics. SIAM Rev. 65 (3) (2023)
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)
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 Moses, Alan S. Perelson, Charles Perrings, Joshua B. Plotkin, Jennifer Rexford, Mohit Tiwari
Challenges in cybersecurity: Lessons from biological defense systems. CoRR (2021)
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)
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)
Peter Czuppon, Florence Débarre, Antonio 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)
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)
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) (2020)
Carolin Zitzmann, Lars Kaderali, Alan S. Perelson
Mathematical modeling of hepatitis C RNA replication, exosome secretion and virus release. PLoS Comput. Biol. 16 (11) (2020)
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)
Jessica M. Conway, Alan S. Perelson
Early HIV Infection Predictions: Role of Viral Replication Errors. SIAM J. Appl. Math. 78 (4) (2018)
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)
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) (2016)
Jessica M. Conway, Alan S. Perelson
Individuals. PLoS Comput. Biol. 12 (1) (2016)
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)
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)
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)
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)
Stanca M. Ciupe, Ruy M. Ribeiro, Alan S. Perelson
Antibody Responses during Hepatitis B Viral Infection. PLoS Comput. Biol. 10 (7) (2014)
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)
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)
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)
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)
Hongyu Miao, Xiaohua Xia, Alan S. Perelson, Hulin Wu
On Identifiability of Nonlinear ODE Models and Applications in Viral Dynamics. SIAM Rev. 53 (1) (2011)
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)
Naveen K. Vaidya, Libin Rong, Vincent C. Marconi, Daniel R. Kuritzkes, Steven G. Deeks, Alan S. Perelson
T Cell Counts but Have Minimal Effects on Viral Load. PLoS Comput. Biol. 6 (11) (2010)
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)
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 (2010)
Timothy C. Reluga, Harel Dahari, Alan S. Perelson
Analysis of Hepatitis C Virus Infection Models with Hepatocyte Homeostasis. SIAM J. Appl. Math. 69 (4) (2009)
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)
Amy L. Bauer, Catherine Beauchemin, Alan S. Perelson
Agent-based modeling of host-pathogen systems: The successes and challenges. Inf. Sci. 179 (10) (2009)
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)
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) (2007)
Hwijin Kim, Alan S. Perelson
Viral and Latent Reservoir Persistence in HIV-1-Infected Patients on Therapy. PLoS Comput. Biol. 2 (10) (2006)
John M. Murray, Alan S. Perelson
Human Immunodeficiency Virus: Quasi-Species and Drug Resistance. Multiscale Model. Simul. 3 (2) (2005)
Joseph T. Wu, Lawrence M. Wein, Alan S. Perelson
Optimization of Influenza Vaccine Selection. Oper. Res. 53 (3) (2005)
Alan S. Perelson
An Overview of Computational and Theoretical Immunology. ICARIS (2004)
Dennis L. Chao, Miles P. Davenport, Stephanie Forrest, Alan S. Perelson
Stochastic Stage-structured Modeling of the Adaptive Immune System. CSB (2003)
Alan S. Perelson, Frederik W. Wiegel
Some design principles for immune system recognition. Complex. 4 (5) (1999)
Alan S. Perelson, Patrick W. Nelson
Mathematical Analysis of HIV-1 Dynamics in Vivo. SIAM Rev. 41 (1) (1999)
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) (1996)
Ron R. Hightower, Stephanie Forrest, Alan S. Perelson
The Evolution of Emergent Organization in Immune System Gene Libraries. ICGA (1995)
Stephanie Forrest, Alan S. Perelson, Lawrence Allen, Rajesh Cherukuri
Self-nonself discrimination in a computer. IEEE Symposium on Security and Privacy (1994)
Robert E. Smith, Stephanie Forrest, Alan S. Perelson
Searching for Diverse, Cooperative Populations with Genetic Algorithms. Evol. Comput. 1 (2) (1993)
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) (1993)
Robert E. Smith, Stephanie Forrest, Alan S. Perelson
Population Diversity in an Immune System Model: Implications for Genetic Search. FOGA (1992)
Stephanie Forrest, Alan S. Perelson
Genetic Algorithms and the Immune System. PPSN (1990)
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) (1976)
Alan S. Perelson
Review of "Introduction to Bond Graphs and Their Applications" by J. U. Thoma. IEEE Trans. Syst. Man Cybern. 6 (11) (1976)