Alan S Perelson

Loop profile ORCID

Publication Activity (10 Years)

Years Active: 2016-2024
Publications (10 Years): 81

Top Venues

PLoS computational biology

PLoS pathogens

Science (New York, N.Y.)

bioRxiv : the preprint server for biology

Los Alamos National Laboratory

University of California Berkeley (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

Los Alamos National Laboratory

United States

Senior Fellow :: Theoretical Biology and Biophysics Group

Education History

University of California Berkeley

United States

PHD :: Biophysics

Massachusetts Institute of Technology

United States

BSC :: Electrical Engineering and Computer Science

Massachusetts Institute of Technology

United States

BSC :: Life Sciences

Publications

Tin Phan, Carolin Zitzmann, Kara W Chew, Davey M Smith, Eric S Daar, David A Wohl, Joseph J Eron, Judith S Currier, Michael D Hughes, Manish C Choudhary, Rinki Deo, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson, null null
Modeling the emergence of viral resistance for SARS-CoV-2 during treatment with an anti-spike monoclonal antibody. PLoS pathogens 20 (4) (2024)
Tin Phan, Jessica M Conway, Nicole Pagane, Jasmine Kreig, Narmada Sambaturu, Sarafa Iyaniwura, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson
Understanding early HIV-1 rebound dynamics following antiretroviral therapy interruption: The importance of effector cell expansion. bioRxiv : the preprint server for biology (2024)
Tin Phan, Carolin Zitzmann, Kara W Chew, Davey M Smith, Eric S Daar, David A Wohl, Joseph J Eron, Judith S Currier, Michael D Hughes, Manish C Choudhary, Rinki Deo, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson, null null
Modeling the emergence of viral resistance for SARS-CoV-2 during treatment with an anti-spike monoclonal antibody. PLoS pathogens 20 (4) (2024)
Tin Phan, Jessica M Conway, Nicole Pagane, Jasmine Kreig, Narmada Sambaturu, Sarafa Iyaniwura, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson
Understanding early HIV-1 rebound dynamics following antiretroviral therapy interruption: The importance of effector cell expansion. PLoS pathogens 20 (7) (2024)
Tin Phan, Jessica M Conway, Nicole Pagane, Jasmine Kreig, Narmada Sambaturu, Sarafa Iyaniwura, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson
Understanding early HIV-1 rebound dynamics following antiretroviral therapy interruption: The importance of effector cell expansion. bioRxiv : the preprint server for biology (2024)
So-Yon Lim, Jin-A Lee, Christa E Osuna, Pratik P Vikhe, Dane R Schalk, Elsa Chen, Emily J Fray, Mithra R Kumar, Nancy J Schultz-Darken, Eva G Rakasz, Saverio Capuano, Ruby A Ladd, Hwi Min Gil, David T Evans, Emily K Jeng, Michael S Seaman, Malcolm A Martin, Christiaan H van Dorp, Alan S Perelson, Hing C Wong, Janet M Siliciano, Robert F Siliciano, Jeffrey T Safrit, Douglas F Nixon, Patrick Soon-Shiong, Michel C Nussenzweig, James B Whitney
Induction of durable remission by dual immunotherapy in SHIV-infected ART-suppressed macaques. Science (New York, N.Y.) 383 (6687) (2024)
Tyler Cassidy, Kathryn E Stephenson, Dan H Barouch, Alan S Perelson
Modeling resistance to the broadly neutralizing antibody PGT121 in people living with HIV-1. PLoS computational biology 20 (3) (2024)
Tin Phan, Jessica M Conway, Nicole Pagane, Jasmine Kreig, Narmada Sambaturu, Sarafa Iyaniwura, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson
Understanding early HIV-1 rebound dynamics following antiretroviral therapy interruption: The importance of effector cell expansion. PLoS pathogens 20 (7) (2024)
Carolin Zitzmann, Ruian Ke, Ruy M Ribeiro, Alan S Perelson
How robust are estimates of key parameters in standard viral dynamic models? PLoS computational biology 20 (4) (2024)
Tin Phan, Carolin Zitzmann, Kara W Chew, Davey M Smith, Eric S Daar, David A Wohl, Joseph J Eron, Judith S Currier, Michael D Hughes, Manish C Choudhary, Rinki Deo, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson, null null
Modeling the emergence of viral resistance for SARS-CoV-2 during treatment with an anti-spike monoclonal antibody. PLoS pathogens 20 (4) (2024)
Carolin Zitzmann, Ruian Ke, Ruy M Ribeiro, Alan S Perelson
How robust are estimates of key parameters in standard viral dynamic models? PLoS computational biology 20 (4) (2024)
Carolin Zitzmann, Ruian Ke, Ruy M Ribeiro, Alan S Perelson
How robust are estimates of key parameters in standard viral dynamic models? PLoS computational biology 20 (4) (2024)
Sarafa A Iyaniwura, Tyler Cassidy, Ruy M Ribeiro, Alan S Perelson
A multiscale model of the action of a capsid assembly modulator for the treatment of chronic hepatitis B. bioRxiv : the preprint server for biology (2024)
Carolin Zitzmann, Ruian Ke, Ruy M Ribeiro, Alan S Perelson
How robust are estimates of key parameters in standard viral dynamic models? PLoS computational biology 20 (4) (2024)
Tin Phan, Carolin Zitzmann, Kara W Chew, Davey M Smith, Eric S Daar, David A Wohl, Joseph J Eron, Judith S Currier, Michael D Hughes, Manish C Choudhary, Rinki Deo, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson, null null
Modeling the emergence of viral resistance for SARS-CoV-2 during treatment with an anti-spike monoclonal antibody. PLoS pathogens 20 (4) (2024)
So-Yon Lim, Jin-A Lee, Christa E Osuna, Pratik P Vikhe, Dane R Schalk, Elsa Chen, Emily J Fray, Mithra R Kumar, Nancy J Schultz-Darken, Eva G Rakasz, Saverio Capuano, Ruby A Ladd, Hwi Min Gil, David T Evans, Emily K Jeng, Michael S Seaman, Malcolm A Martin, Christiaan H van Dorp, Alan S Perelson, Hing C Wong, Janet M Siliciano, Robert F Siliciano, Jeffrey T Safrit, Douglas F Nixon, Patrick Soon-Shiong, Michel C Nussenzweig, James B Whitney
Induction of durable remission by dual immunotherapy in SHIV-infected ART-suppressed macaques. Science (New York, N.Y.) 383 (6687) (2024)
Tin Phan, Jessica M Conway, Nicole Pagane, Jasmine Kreig, Narmada Sambaturu, Sarafa Iyaniwura, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson
Understanding early HIV-1 rebound dynamics following antiretroviral therapy interruption: The importance of effector cell expansion. bioRxiv : the preprint server for biology (2024)
Tin Phan, Jessica M Conway, Nicole Pagane, Jasmine Kreig, Narmada Sambaturu, Sarafa Iyaniwura, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson
Understanding early HIV-1 rebound dynamics following antiretroviral therapy interruption: The importance of effector cell expansion. PLoS pathogens 20 (7) (2024)
Tyler Cassidy, Kathryn E Stephenson, Dan H Barouch, Alan S Perelson
Modeling resistance to the broadly neutralizing antibody PGT121 in people living with HIV-1. PLoS computational biology 20 (3) (2024)
Tyler Cassidy, Kathryn E Stephenson, Dan H Barouch, Alan S Perelson
Modeling resistance to the broadly neutralizing antibody PGT121 in people living with HIV-1. PLoS computational biology 20 (3) (2024)
So-Yon Lim, Jin-A Lee, Christa E Osuna, Pratik P Vikhe, Dane R Schalk, Elsa Chen, Emily J Fray, Mithra R Kumar, Nancy J Schultz-Darken, Eva G Rakasz, Saverio Capuano, Ruby A Ladd, Hwi Min Gil, David T Evans, Emily K Jeng, Michael S Seaman, Malcolm A Martin, Christiaan H van Dorp, Alan S Perelson, Hing C Wong, Janet M Siliciano, Robert F Siliciano, Jeffrey T Safrit, Douglas F Nixon, Patrick Soon-Shiong, Michel C Nussenzweig, James B Whitney
Induction of durable remission by dual immunotherapy in SHIV-infected ART-suppressed macaques. Science (New York, N.Y.) 383 (6687) (2024)
Tin Phan, Carolin Zitzmann, Kara W Chew, Davey M Smith, Eric S Daar, David A Wohl, Joseph J Eron, Judith S Currier, Michael D Hughes, Manish C Choudhary, Rinki Deo, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson, null null
Modeling the emergence of viral resistance for SARS-CoV-2 during treatment with an anti-spike monoclonal antibody. PLoS pathogens 20 (4) (2024)
So-Yon Lim, Jin-A Lee, Christa E Osuna, Pratik P Vikhe, Dane R Schalk, Elsa Chen, Emily J Fray, Mithra R Kumar, Nancy J Schultz-Darken, Eva G Rakasz, Saverio Capuano, Ruby A Ladd, Hwi Min Gil, David T Evans, Emily K Jeng, Michael S Seaman, Malcolm A Martin, Christiaan H van Dorp, Alan S Perelson, Hing C Wong, Janet M Siliciano, Robert F Siliciano, Jeffrey T Safrit, Douglas F Nixon, Patrick Soon-Shiong, Michel C Nussenzweig, James B Whitney
Induction of durable remission by dual immunotherapy in SHIV-infected ART-suppressed macaques. Science (New York, N.Y.) (2024)
Alan S Perelson, Tin Phan, Jessica M Conway, Nicole Pagane, Jasmine Kreig, Narmada Sambaturu, Sarafa Iyaniwura, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke
Understanding early HIV-1 rebound dynamics following antiretroviral therapy interruption: The importance of effector cell expansion. bioRxiv : the preprint server for biology (2024)
So-Yon Lim, Jin-A Lee, Christa E Osuna, Pratik P Vikhe, Dane R Schalk, Elsa Chen, Emily J Fray, Mithra R Kumar, Nancy J Schultz-Darken, Eva G Rakasz, Saverio Capuano, Ruby A Ladd, Hwi Min Gil, David T Evans, Emily K Jeng, Michael S Seaman, Malcolm A Martin, Christiaan H van Dorp, Alan S Perelson, Hing C Wong, Janet M Siliciano, Robert F Siliciano, Jeffrey T Safrit, Douglas F Nixon, Patrick Soon-Shiong, Michel C Nussenzweig, James B Whitney
Induction of durable remission by dual immunotherapy in SHIV-infected ART-suppressed macaques. Science (New York, N.Y.) 383 (6687) (2024)
So-Yon Lim, Jin-A Lee, Christa E Osuna, Pratik P Vikhe, Dane R Schalk, Elsa Chen, Emily J Fray, Mithra R Kumar, Nancy J Schultz-Darken, Eva G Rakasz, Saverio Capuano, Ruby A Ladd, Hwi Min Gil, David T Evans, Emily K Jeng, Michael S Seaman, Malcolm A Martin, Christiaan H van Dorp, Alan S Perelson, Hing C Wong, Janet M Siliciano, Robert F Siliciano, Jeffrey T Safrit, Douglas F Nixon, Patrick Soon-Shiong, Michel C Nussenzweig, James B Whitney
Induction of durable remission by dual immunotherapy in SHIV-infected ART-suppressed macaques. Science (New York, N.Y.) 383 (6687) (2024)
Tin Phan, Jessica M Conway, Nicole Pagane, Jasmine Kreig, Narmada Sambaturu, Sarafa Iyaniwura, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson
Understanding early HIV-1 rebound dynamics following antiretroviral therapy interruption: The importance of effector cell expansion. PLoS pathogens 20 (7) (2024)
Tyler Cassidy, Kathryn E Stephenson, Dan H Barouch, Alan S Perelson
Modeling resistance to the broadly neutralizing antibody PGT121 in people living with HIV-1. PLoS computational biology 20 (3) (2024)
Tin Phan, Carolin Zitzmann, Kara W Chew, Davey M Smith, Eric S Daar, David A Wohl, Joseph J Eron, Judith S Currier, Michael D Hughes, Manish C Choudhary, Rinki Deo, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson, null null
Modeling the emergence of viral resistance for SARS-CoV-2 during treatment with an anti-spike monoclonal antibody. PLoS pathogens 20 (4) (2024)
Tyler Cassidy, Kathryn E Stephenson, Dan H Barouch, Alan S Perelson
Modeling resistance to the broadly neutralizing antibody PGT121 in people living with HIV-1. PLoS computational biology 20 (3) (2024)
So-Yon Lim, Jin-A Lee, Christa E Osuna, Pratik P Vikhe, Dane R Schalk, Elsa Chen, Emily J Fray, Mithra R Kumar, Nancy J Schultz-Darken, Eva G Rakasz, Saverio Capuano, Ruby A Ladd, Hwi Min Gil, David T Evans, Emily K Jeng, Michael S Seaman, Malcolm A Martin, Christiaan H van Dorp, Alan S Perelson, Hing C Wong, Janet M Siliciano, Robert F Siliciano, Jeffrey T Safrit, Douglas F Nixon, Patrick Soon-Shiong, Michel C Nussenzweig, James B Whitney
Induction of durable remission by dual immunotherapy in SHIV-infected ART-suppressed macaques. Science (New York, N.Y.) 383 (6687) (2024)
Tin Phan, Jessica M Conway, Nicole Pagane, Jasmine Kreig, Narmada Sambaturu, Sarafa Iyaniwura, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson
Understanding early HIV-1 rebound dynamics following antiretroviral therapy interruption: The importance of effector cell expansion. PLoS pathogens 20 (7) (2024)
So-Yon Lim, Jin-A Lee, Christa E Osuna, Pratik P Vikhe, Dane R Schalk, Elsa Chen, Emily J Fray, Mithra R Kumar, Nancy J Schultz-Darken, Eva G Rakasz, Saverio Capuano, Ruby A Ladd, Hwi Min Gil, David T Evans, Emily K Jeng, Michael S Seaman, Malcolm A Martin, Christiaan H van Dorp, Alan S Perelson, Hing C Wong, Janet M Siliciano, Robert F Siliciano, Jeffrey T Safrit, Douglas F Nixon, Patrick Soon-Shiong, Michel C Nussenzweig, James B Whitney
Induction of durable remission by dual immunotherapy in SHIV-infected ART-suppressed macaques. Science (New York, N.Y.) 383 (6687) (2024)
So-Yon Lim, Jin-A Lee, Christa E Osuna, Pratik P Vikhe, Dane R Schalk, Elsa Chen, Emily J Fray, Mithra R Kumar, Nancy J Schultz-Darken, Eva G Rakasz, Saverio Capuano, Ruby A Ladd, Hwi Min Gil, David T Evans, Emily K Jeng, Michael S Seaman, Malcolm A Martin, Christiaan H van Dorp, Alan S Perelson, Hing C Wong, Janet M Siliciano, Robert F Siliciano, Jeffrey T Safrit, Douglas F Nixon, Patrick Soon-Shiong, Michel C Nussenzweig, James B Whitney
Induction of durable remission by dual immunotherapy in SHIV-infected ART-suppressed macaques. Science (New York, N.Y.) (2024)
Tin Phan, Carolin Zitzmann, Kara W Chew, Davey M Smith, Eric S Daar, David A Wohl, Joseph J Eron, Judith S Currier, Michael D Hughes, Manish C Choudhary, Rinki Deo, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson, null null
Modeling the emergence of viral resistance for SARS-CoV-2 during treatment with an anti-spike monoclonal antibody. PLoS pathogens 20 (4) (2024)
Tyler Cassidy, Kathryn E Stephenson, Dan H Barouch, Alan S Perelson
Modeling resistance to the broadly neutralizing antibody PGT121 in people living with HIV-1. PLoS computational biology 20 (3) (2024)
Tin Phan, Carolin Zitzmann, Kara W Chew, Davey M Smith, Eric S Daar, David A Wohl, Joseph J Eron, Judith S Currier, Michael D Hughes, Manish C Choudhary, Rinki Deo, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson, null null
Modeling the emergence of viral resistance for SARS-CoV-2 during treatment with an anti-spike monoclonal antibody. PLoS pathogens 20 (4) (2024)
Tin Phan, Carolin Zitzmann, Kara W Chew, Davey M Smith, Eric S Daar, David A Wohl, Joseph J Eron, Judith S Currier, Michael D Hughes, Manish C Choudhary, Rinki Deo, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson, null null
Modeling the emergence of viral resistance for SARS-CoV-2 during treatment with an anti-spike monoclonal antibody. PLoS pathogens 20 (4) (2024)
Sarafa A Iyaniwura, Tyler Cassidy, Ruy M Ribeiro, Alan S Perelson
A multiscale model of the action of a capsid assembly modulator for the treatment of chronic hepatitis B. bioRxiv : the preprint server for biology (2024)
Kara W Chew, Carlee B Moser, Eric S Daar, David Alain Wohl, Jonathan Z Li, Robert W Coombs, Justin Ritz, Mark Giganti, Arzhang Cyrus Javan, Yijia Li, Manish C Choudhary, Rinki Deo, Carlos Malvestutto, Paul Klekotka, Karen Price, Ajay Nirula, William Fischer, Veenu Bala, Ruy M Ribeiro, Alan S Perelson, Courtney V Fletcher, Joseph J Eron, Judith S Currier, null null, Michael D Hughes, Davey M Smith
Publisher Correction: Antiviral and clinical activity of bamlanivimab in a randomized trial of non-hospitalized adults with COVID-19. Nature communications 14 (1) (2023)
Mithra R Kumar, Emily J Fray, Alexandra M Bender, Carolin Zitzmann, Ruy M Ribeiro, Alan S Perelson, Dan H Barouch, Janet D Siliciano, Robert F Siliciano
Biphasic decay of intact SHIV genomes following initiation of antiretroviral therapy complicates analysis of interventions targeting the reservoir. Proceedings of the National Academy of Sciences of the United States of America 120 (43) (2023)
Amir Dashti, Sophia Sukkestad, Anna M Horner, Margaret Neja, Zain Siddiqi, Chevaughn Waller, Jordan Goldy, Dominique Monroe, Alice Lin, Nils Schoof, Vidisha Singh, Maud Mavigner, Jeffrey D Lifson, Claire Deleage, Marina Tuyishime, Shane D Falcinelli, Hannah A D King, Ruian Ke, Rosemarie D Mason, Nancie M Archin, Richard M Dunham, Jeffrey T Safrit, Sherrie M Jean, Alan S Perelson, David M Margolis, Guido Ferrari, Mario Roederer, Guido Silvestri, Ann Chahroudi
AZD5582 plus SIV-specific antibodies reduce lymph node viral reservoirs in antiretroviral therapy-suppressed macaques. Nature medicine (2023)
Benjamin B Policicchio, Erwing Fabian Cardozo Ojeda, Cuiling Xu, Dongzhu Ma, Tianyu He, Kevin D Raehtz, Ranjit Sivanandham, Adam J Kleinman, Alan S Perelson, Cristian Apetrei, Ivona Pandrea, Ruy M Ribeiro
CD8 + T cells control SIV infection using both cytolytic effects and non-cytolytic suppression of virus production. Nature communications 14 (1) (2023)
Carolin Zitzmann, Christopher Daechert, 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 computational biology 19 (4) (2023)
Tin Phan, Carolin Zitzmann, Kara W Chew, Davey M Smith, Eric S Daar, David A Wohl, Joseph J Eron, Judith S Currier, Michael D Hughes, Manish C Choudhary, Rinki Deo, Jonathan Z Li, Ruy M Ribeiro, Ruian Ke, Alan S Perelson, null null
Modeling the emergence of viral resistance for SARS-CoV-2 during treatment with an anti-spike monoclonal antibody. bioRxiv : the preprint server for biology (2023)
Kara W Chew, Carlee B Moser, Eric S Daar, David Alain Wohl, Jonathan Z Li, Robert W Coombs, Justin Ritz, Mark Giganti, Arzhang Cyrus Javan, Yijia Li, Manish C Choudhary, Rinki Deo, Carlos Malvestutto, Paul Klekotka, Karen Price, Ajay Nirula, William Fischer, Veenu Bala, Ruy M Ribeiro, Alan S Perelson, Courtney V Fletcher, Joseph J Eron, Judith S Currier, null null, Michael D Hughes, Davey M Smith
Publisher Correction: Antiviral and clinical activity of bamlanivimab in a randomized trial of non-hospitalized adults with COVID-19. Nature communications 14 (1) (2023)
Kara W Chew, Carlee B Moser, Eric S Daar, David Alain Wohl, Jonathan Z Li, Robert W Coombs, Justin Ritz, Mark Giganti, Arzhang Cyrus Javan, Yijia Li, Manish C Choudhary, Rinki Deo, Carlos Malvestutto, Paul Klekotka, Karen Price, Ajay Nirula, William Fischer, Veenu Bala, Ruy M Ribeiro, Alan S Perelson, Courtney V Fletcher, Joseph J Eron, Judith S Currier, null null, Michael D Hughes, Davey M Smith
Antiviral and clinical activity of bamlanivimab in a randomized trial of non-hospitalized adults with COVID-19. Nature communications 13 (1) (2022)
Manish C Choudhary, Kara W Chew, Rinki Deo, James P Flynn, James Regan, Charles R Crain, Carlee B Moser, Michael D Hughes, Justin Ritz, Ruy M Ribeiro, Ruian Ke, Joan A Dragavon, Arzhang Cyrus Javan, Ajay Nirula, Paul Klekotka, Alexander L Greninger, Courtney V Fletcher, Eric S Daar, David Alain Wohl, Joseph J Eron, Judith S Currier, Urvi M Parikh, Scott F Sieg, Alan S Perelson, Robert W Coombs, Davey M Smith, Jonathan Z Li, null null
Emergence of SARS-CoV-2 escape mutations during Bamlanivimab therapy in a phase II randomized clinical trial. Nature microbiology 7 (11) (2022)
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 computational biology 18 (4) (2022)
Jennifer A White, Francesco R Simonetti, Subul Beg, Natalie F McMyn, Weiwei Dai, Niklas Bachmann, Jun Lai, William C Ford, Christina Bunch, Joyce L Jones, Ruy M Ribeiro, Alan S Perelson, Janet D Siliciano, Robert F Siliciano
Complex decay dynamics of HIV virions, intact and defective proviruses, and 2LTR circles following initiation of antiretroviral therapy. Proceedings of the National Academy of Sciences of the United States of America 119 (6) (2022)
Carolin Zitzmann, Christopher Daechert, 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. bioRxiv : the preprint server for biology (2022)
Chase D McCann, Christiaan H van Dorp, Ali Danesh, Adam R Ward, Thomas R Dilling, Talia M Mota, Elizabeth Zale, Eva M Stevenson, Shabnum Patel, Chanson J Brumme, Winnie Dong, Douglas S Jones, Thomas Lars Andresen, Bruce D Walker, Zabrina L Brumme, Catherine M Bollard, Alan S Perelson, Darrell J Irvine, R Brad Jones
A participant-derived xenograft model of HIV enables long-term evaluation of autologous immunotherapies. The Journal of experimental medicine 218 (7) (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 computational biology 17 (6) (2021)
Shoya Iwanami, Keisuke Ejima, Kawang Su Kim, Koji Noshita, Yasuhisa Fujita, Taiga Miyazaki, Shigeru Kohno, Yoshitsugu Miyazaki, Shimpei Morimoto, Shinji Nakaoka, Yoshiki Koizumi, Yusuke Asai, Kazuyuki Aihara, Koichi Watashi, Robin N Thompson, Kenji Shibuya, Katsuhito Fujiu, Alan S Perelson, Shingo Iwami, Takaji Wakita
Detection of significant antiviral drug effects on COVID-19 with reasonable sample sizes in randomized controlled trials: A modeling study. PLoS medicine 18 (7) (2021)
Louis M Shekhtman, Miquel Navasa, Natasha Sansone, Gonzalo Crespo, Gitanjali Subramanya, Tje Lin Chung, Erwing Fabian Cardozo Ojeda, Sofía Pérez-Del-Pulgar, Alan S Perelson, Scott J Cotler, Xavier Forns, Susan L Uprichard, Harel Dahari
Modeling hepatitis C virus kinetics during liver transplantation reveals the role of the liver in virus clearance. eLife 10 (2021)
Peter Czuppon, Florence Débarre, Antonio Gonçalves, Olivier Tenaillon, Alan S Perelson, Jeremie 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 computational biology 17 (3) (2021)
Naveen K Vaidya, Angelica Bloomquist, Alan S Perelson
Modeling Within-Host Dynamics of SARS-CoV-2 Infection: A Case Study in Ferrets. Viruses 13 (8) (2021)
Katharine Best, Dan H Barouch, Jeremie Guedj, Ruy M Ribeiro, Alan S Perelson
Zika virus dynamics: Effects of inoculum dose, the innate immune response and viral interference. PLoS computational biology 17 (1) (2021)
So-Yon Lim, Christa E Osuna, Katharine Best, Ray Taylor, Elsa Chen, Gyeol Yoon, Jessica L Kublin, Dane R Schalk, Nancy J Schultz-Darken, Saverio Capuano, David Safronetz, Ma Luo, Steve MacLennan, Amanda Mathis, Yarlagadda S Babu, William P Sheridan, Alan S Perelson, James B Whitney
A direct-acting antiviral drug abrogates viremia in Zika virus-infected rhesus macaques. Science translational medicine 12 (547) (2021)
Maud Mavigner, Laura E Liao, Alyssa D Brooks, Ruian Ke, Cameron Mattingly, Nils Schoof, Julia McBrien, Diane Carnathan, Shan Liang, Thomas H Vanderford, Mirko Paiardini, Deanna A Kulpa, Jeffrey D Lifson, Richard M Dunham, Kirk A Easley, David M Margolis, Alan S Perelson, Guido Silvestri, Ann Chahroudi
CD8 lymphocyte depletion enhances the latency reversal activity of the SMAC mimetic AZD5582 in ART-suppressed SIV-infected rhesus macaques. Journal of virology (2021)
Kathryn E Stephenson, Boris Julg, C Sabrina Tan, Rebecca Zash, Stephen R Walsh, Charlotte-Paige Rolle, Ana N Monczor, Sofia Lupo, Huub C Gelderblom, Jessica L Ansel, Diane G Kanjilal, Lori F Maxfield, Joseph Nkolola, Erica N Borducchi, Peter Abbink, Jinyan Liu, Lauren Peter, Abishek Chandrashekar, Ramya Nityanandam, Zijin Lin, Alessandra Setaro, Joseph Sapiente, Zhilin Chen, Lisa Sunner, Tyler Cassidy, Chelsey Bennett, Alicia Sato, Bryan T Mayer, Alan S Perelson, Allan deCamp, Frances H Priddy, Kshitij Wagh, Elena E Giorgi, Nicole L Yates, Roberto C Arduino, Edwin DeJesus, Georgia D Tomaras, Michael S Seaman, Bette Korber, Dan H Barouch
Safety, pharmacokinetics and antiviral activity of PGT121, a broadly neutralizing monoclonal antibody against HIV-1: a randomized, placebo-controlled, phase 1 clinical trial. Nature medicine 27 (10) (2021)
Ruian Ke, Carolin Zitzmann, David D Ho, Ruy M Ribeiro, Alan S Perelson
In vivo kinetics of SARS-CoV-2 infection and its relationship with a person's infectiousness. Proceedings of the National Academy of Sciences of the United States of America 118 (49) (2021)
Kawang Su Kim, Keisuke Ejima, Shoya Iwanami, Yasuhisa Fujita, Hirofumi Ohashi, Yoshiki Koizumi, Yusuke Asai, Shinji Nakaoka, Koichi Watashi, Kazuyuki Aihara, Robin N Thompson, Ruian Ke, Alan S Perelson, Shingo Iwami
A quantitative model used to compare within-host SARS-CoV-2, MERS-CoV, and SARS-CoV dynamics provides insights into the pathogenesis and treatment of SARS-CoV-2. PLoS biology 19 (3) (2021)
Elvan Akın, Gülşah Yeni, Alan S Perelson
Continuous and discrete modeling of HIV-1 decline on therapy. Journal of mathematical biology 81 (1) (2020)
Laura E Liao, Jonathan Carruthers, Sophie J Smither, null null, Simon A Weller, Ethel Diane Williamson, Thomas R Laws, Isabel Garcia-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 computational biology 16 (11) (2020)
Mangaiarkarasi Asokan, Joana Dias, Cuiping Liu, Anna Maximova, Keenan Ernste, Amarendra Pegu, Krisha McKee, Wei Shi, Xuejun Chen, Cassandra Almasri, Wanwisa Promsote, David R Ambrozak, Lucio Gama, Jianfei Hu, Daniel C Douek, John-Paul Todd, Jeffrey D Lifson, Slim Fourati, Rafick P Sekaly, Andrew R Crowley, Margaret E Ackerman, Sung Hee Ko, Divya Kilam, Eli A Boritz, Laura E Liao, Katharine Best, Alan S Perelson, John R Mascola, Richard A Koup
Fc-mediated effector function contributes to the in vivo antiviral effect of an HIV neutralizing antibody. Proceedings of the National Academy of Sciences of the United States of America 117 (31) (2020)
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 computational biology 16 (10) (2020)
Carolin Zitzmann, Lars Kaderali, Alan S Perelson
Mathematical modeling of hepatitis C RNA replication, exosome secretion and virus release. PLoS computational biology 16 (11) (2020)
Pengfei Wang, Mili R Gajjar, Jian Yu, Neal N Padte, Agegnehu Gettie, James L Blanchard, Kasi E Russell-Lodrigue, Laura E Liao, Alan S Perelson, Yaoxing Huang, David D Ho
Quantifying the contribution of Fc-mediated effector functions to the antiviral activity of anti-HIV-1 IgG1 antibodies in vivo. Proceedings of the National Academy of Sciences of the United States of America 117 (30) (2020)
Jones M Mutua, Alan S Perelson, Anil Kumar, Naveen K Vaidya
Modeling the Effects of Morphine-Altered Virus Specific Antibody Responses on HIV/SIV Dynamics. Scientific reports 9 (1) (2019)
Alan S Perelson, Ruy M Ribeiro
Introduction to modeling viral infections and immunity. Immunological reviews 285 (1) (2019)
Katharine Best, Alan S Perelson
Mathematical modeling of within-host Zika virus dynamics. Immunological reviews 285 (1) (2019)
Soumya Banerjee, Alan S Perelson, Melanie E Moses
Modelling the effects of phylogeny and body size on within-host pathogen replication and immune response. Journal of the Royal Society, Interface 14 (136) (2018)
Youfang Cao, Emily K Cartwright, Guido Silvestri, Alan S Perelson
CD8+ lymphocyte control of SIV infection during antiretroviral therapy. PLoS pathogens 14 (10) (2018)
Thomas R Aunins, Katherine A Marsh, Gitanjali Subramanya, Susan L Uprichard, Alan S Perelson, Anushree Chatterjee
Intracellular Hepatitis C Virus Modeling Predicts Infection Dynamics and Viral Protein Mechanisms. Journal of virology 92 (11) (2018)
Ashish Goyal, Ruy M Ribeiro, Alan S Perelson
The Role of Infected Cell Proliferation in the Clearance of Acute HBV Infection in Humans. Viruses 9 (11) (2017)
E Fabian Cardozo, Adriana Andrade, John W Mellors, Daniel R Kuritzkes, Alan S Perelson, Ruy M Ribeiro
Treatment with integrase inhibitor suggests a new interpretation of HIV RNA decay curves that reveals a subset of cells with slow integration. PLoS pathogens 13 (7) (2017)
Tiffany Benzine, Ryan Brandt, William C Lovell, Daisuke Yamane, Petra Neddermann, Raffaele De Francesco, Stanley M Lemon, Alan S Perelson, Ruian Ke, David R McGivern
NS5A inhibitors unmask differences in functional replicase complex half-life between different hepatitis C virus strains. PLoS pathogens 13 (6) (2017)
Rob J De Boer, Alan S Perelson
How Germinal Centers Evolve Broadly Neutralizing Antibodies: the Breadth of the Follicular Helper T Cell Response. Journal of virology 91 (22) (2017)
Ruian Ke, Mian-Er Cong, David Li, J Gerardo García-Lerma, Alan S Perelson
On the Death Rate of Abortively Infected Cells: Estimation from Simian-Human Immunodeficiency Virus Infection. Journal of virology 91 (18) (2017)
Soumya Banerjee, Jeremie Guedj, Ruy M Ribeiro, Melanie Moses, Alan S Perelson
Estimating biologically relevant parameters under uncertainty for experimental within-host murine West Nile virus infection. Journal of the Royal Society, Interface 13 (117) (2016)

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Alan S Perelson