Ruy M. Ribeiro

Immunology and MicrobiologyMedicine

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 100%percentile

0Author DataRank

Indexed papers

0in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Papers

Driven by 56 papers. Top paper: “In vivo kinetics of SARS-CoV-2 infection and its relationship with a person’s infectiousness”.

In vivo kinetics of SARS-CoV-2 infection and its relationship with a person’s infectiousness

Proceedings of the National Academy of Sciences(2021)10.1073/pnas.2111477118

N/A

5.6DataRank · unranked

183 citations

Carolin Zitzmann, David D. Ho, Ruy M. Ribeiro, Alan S. Perelson, Ruian Ke

Emergence of SARS-CoV-2 escape mutations during Bamlanivimab therapy in a phase II randomized clinical trial

Nature Microbiology(2022)10.1038/s41564-022-01254-1

N/A

1.6DataRank · unranked

53 citations

Kara W Chew, Rinki Deo, James P. Flynn, James Regan, Charles R. Crain +51 more

Single hepatocytes show persistence and transcriptional inactivity of hepatitis B

JCI Insight(2020)10.1172/jci.insight.140584

N/A

1.5DataRank · unranked

34 citations

Tanner Grudda, Ruy M. Ribeiro, Yasmeen S. Saad, Hyon S. Hwang, Jeffrey Quinn +9 more

Antiretroviral therapy reveals triphasic decay of intact SIV genomes and persistence of ancestral variants

Cell Host & Microbe(2023)10.1016/j.chom.2023.01.016

N/A

0.962DataRank · unranked

29 citations

Fengting Wu, Francesco R. Simonetti, Carolin Zitzmann, Narmada Sambaturu, Carmen Molina-Parı́s +13 more

Bamlanivimab reduces nasopharyngeal SARS-CoV-2 RNA levels but not symptom duration in non-hospitalized adults with COVID-19

medRxiv(2021)10.1101/2021.12.17.21268009

N/A

0.626DataRank · unranked

14 citations

Carlee Moser, Eric S. Daar, David A. Wohl, Jonathan Z. Li, Robert W. Coombs +18 more

Modeling the emergence of viral resistance for SARS-CoV-2 during treatment with an anti-spike monoclonal antibody

PLoS Pathogens(2024)10.1371/journal.ppat.1011680

N/A

0.541DataRank · unranked

17 citations

Carolin Zitzmann, Kara W Chew, Davey M. Smith, Eric S. Daar, David A. Wohl +11 more

Hepatitis B e Antigen-Negative Single Hepatocyte Analysis Shows Transcriptional Silencing and Slow Decay of Infected Cells With Treatment

The Journal of Infectious Diseases(2023)10.1093/infdis/jiad124

N/A

0.484DataRank · unranked

8 citations

Maraake Taddese, Yasmeen S. Saad, Kristina Diana A. Zambo, Ruy M. Ribeiro, Tanner Grudda +7 more

The reproduction number and its probability distribution for stochastic viral dynamics

Journal of The Royal Society Interface(2024)10.1098/rsif.2023.0400

N/A

0.464DataRank · unranked

13 citations

Jonathan Carruthers, Joseph J. Gillard, Grant Lythe, Alan S. Perelson, Ruy M. Ribeiro +3 more

Variant-Specific Viral Kinetics in Acute COVID-19

The Journal of Infectious Diseases(2023)10.1093/infdis/jiad314

N/A

0.395DataRank · unranked

5 citations

Manish C. Choudhary, Rinki Deo, Mark J Giganti, Carlee Moser, Justin Ritz +26 more

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(2023)10.1073/pnas.2313209120

N/A

0.382DataRank · unranked

6 citations

Emily J. Fray, Alexandra M. Bender, Carolin Zitzmann, Ruy M. Ribeiro, Alan S. Perelson +4 more

A multiscale model of the action of a capsid assembly modulator for the treatment of chronic hepatitis B

PLoS Computational Biology(2025)10.1371/journal.pcbi.1012322

N/A

0.215DataRank · unranked

3 citations

Tyler Cassidy, Ruy M. Ribeiro, Alan S. Perelson, Sarafa A. Iyaniwura

Second-Phase Hepatitis C Plasma Viral Kinetics Directly Reflects Reduced Intrahepatic Burden of Hepatitis C Virus

The Journal of Infectious Diseases(2023)10.1093/infdis/jiad025

N/A

0.165DataRank · unranked

2 citations

Ashwin Balagopal, Julia Leep-Lazar, Jeffrey Quinn, Kenneth Bowden, Kathleen Ward +3 more

Editorial: Integrative Computational Systems Biology Approaches in Immunology and Medicine

Frontiers in Microbiology(2019)10.3389/fmicb.2018.03338

N/A

0.104DataRank · unranked

1 citations

Vitaly V. Ganusov, Stanca M. Ciupe, Ramit Mehr, Ruy M. Ribeiro, Esteban A. Hernandez-Vargas +3 more

Antiviral and clinical activity of bamlanivimab in a randomized trial of non-hospitalized adults with COVID-19

Nature Communications(2022)10.1038/s41467-022-32551-2

N/A

0DataRank · unranked

49 citations

Carlee Moser, Eric S. Daar, David A. Wohl, Jonathan Z. Li, Robert W. Coombs +21 more

A simple model of COVID-19 explains disease severity and the effect of treatments

Scientific Reports(2022)10.1038/s41598-022-18244-2

N/A

0DataRank · unranked

26 citations

Tyler Cassidy, P.-H. Chu, Alan S. Perelson, Ruy M. Ribeiro, Ruian Ke +1 more

Rapid waning of protection induced by prior BA.1/BA.2 infection against BA.5 infection

medRxiv(2022)10.1101/2022.08.16.22278820

N/A

0DataRank · unranked

12 citations

Ruy M. Ribeiro, Eugénia Fernandes, Pedro Pinto Leite, Pedro Casaca, Carlos Antunes +4 more

CD8+ T-cells control infection by exerting both cytolytic and non-cytolytic effects in different phases of the SIV lifecycle

Research Square(2022)10.21203/rs.3.rs-1965543/v1

N/A

0DataRank · unranked

0 citations

E. Fabián Cardozo-Ojeda, Cuiling Xu, Dongzhu Ma, Tianyu He, Kevin D. Raehtz +7 more

The latent reservoir of inducible, infectious HIV-1 does not decrease despite decades of antiretroviral therapy

Journal of Clinical Investigation(2023)10.1172/jci171554

N/A

0DataRank · unranked

134 citations

Joseph Varriale, Emily J. Fray, Carolin Zitzmann, H. H. B. Macleod, Jun Lai +21 more

Stability of hybrid versus vaccine immunity against BA.5 infection over 8 months

The Lancet Infectious Diseases(2023)10.1016/s1473-3099(22)00833-7

N/A

0DataRank · unranked

31 citations

Ruy M. Ribeiro, Eugénia Fernandes, Pedro Pinto Leite, Pedro Casaca, Carlos Antunes +4 more

CD8+ T cells control SIV infection using both cytolytic effects and non-cytolytic suppression of virus production

Nature Communications(2023)10.1038/s41467-023-42435-8

N/A

0DataRank · unranked

23 citations

E. Fabián Cardozo-Ojeda, Cuiling Xu, Dongzhu Ma, Tianyu He, Kevin D. Raehtz +7 more

Making waves: Integrating wastewater surveillance with dynamic modeling to track and predict viral outbreaks

Water Research(2023)10.1016/j.watres.2023.120372

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0DataRank · unranked

21 citations

Samantha Brozak, Bruce Pell, Jeremiah Oghuan, Anna Gitter, Tao Hu +7 more

T cell activation is insufficient to drive SIV disease progression

JCI Insight(2023)10.1172/jci.insight.161111

N/A

0DataRank · unranked

8 citations

Thaidra Gaufin, Egidio Brocca‐Cofano, Ranjit Sivanandham, Paola Sette, Tianyu He +13 more

Changes in serum-neutralizing antibody potency and breadth post-SARS-CoV-2 mRNA vaccine boost

iScience(2023)10.1016/j.isci.2023.106345

N/A

0DataRank · unranked

6 citations

Ruy M. Ribeiro, Maple Wang, Anthony Bowen, Lihong Liu, Yicheng Guo +8 more

Illuminating a blind spot in SARS-CoV-2 immunity

Nature Immunology(2023)10.1038/s41590-023-01518-w

N/A

0DataRank · unranked

2 citations

Ana Maria Caetano Faria, Ruy M. Ribeiro, Luís Graça

An explanation for SARS-CoV-2 rebound after Paxlovid treatment

medRxiv(2023)10.1101/2023.05.30.23290747

N/A

0DataRank · unranked

37 citations

Ruy M. Ribeiro, Tin Phan, Alan S. Perelson

Modeling the emergence of viral resistance for SARS-CoV-2 during treatment with an anti-spike monoclonal antibody

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.09.14.557679

N/A

0DataRank · unranked

5 citations

Carolin Zitzmann, Kara W Chew, Davey M. Smith, Eric S. Daar, David A. Wohl +11 more

Investigating Alternative Models of Acute HIV Infection

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.06.04.543605

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0DataRank · unranked

3 citations

Ruy M. Ribeiro, Jessica M. Conway, Ellie Mainou

Prolonged viral shedding from noninfectious individuals confounds wastewater-based epidemiology

medRxiv(2023)10.1101/2023.06.08.23291144

N/A

0DataRank · unranked

3 citations

Samantha Brozak, Bruce Pell, Stanca M. Ciupe, Ruian Ke, Ruy M. Ribeiro +6 more

Emergence of SARS-CoV-2 escape mutations during Bamlanivimab therapy in a phase II randomized clinical trial

UNC Libraries(2023)10.17615/s90c-rs31

N/A

0DataRank · unranked

0 citations

Jonathan Z. Li, Paul Klekotka, James P. Flynn, Joseph J. Eron, Justin Ritz +23 more

The kinetics of SARS-CoV-2 infection based on a human challenge study

Proceedings of the National Academy of Sciences(2024)10.1073/pnas.2406303121

N/A

0DataRank · unranked

33 citations

Ruy M. Ribeiro, Carolin Zitzmann, Tin Phan, Ruian Ke, Alan S. Perelson +1 more

How robust are estimates of key parameters in standard viral dynamic models?

PLoS Computational Biology(2024)10.1371/journal.pcbi.1011437

N/A

0DataRank · unranked

29 citations

Ruian Ke, Ruy M. Ribeiro, Alan S. Perelson, Carolin Zitzmann

Dual blockade of IL-10 and PD-1 leads to control of SIV viral rebound following analytical treatment interruption

Nature Immunology(2024)10.1038/s41590-024-01952-4

N/A

0DataRank · unranked

23 citations

Zachary Strongin, Hugo Soudeyns, Felipe ten-Caten, Khader Ghneim, Gabriela Pacheco Sánchez +25 more

Understanding early HIV-1 rebound dynamics following antiretroviral therapy interruption: The importance of effector cell expansion

PLoS Pathogens(2024)10.1371/journal.ppat.1012236

N/A

0DataRank · unranked

10 citations

Jessica M. Conway, Nicole Pagane, Jasmine Kreig, Narmada Sambaturu, Sarafa A. Iyaniwura +5 more

Modeling dynamics of acute HIV infection incorporating density-dependent cell death and multiplicity of infection

PLoS Computational Biology(2024)10.1371/journal.pcbi.1012129

N/A

0DataRank · unranked

7 citations

Ruy M. Ribeiro, Jessica M. Conway, Ellie Mainou

Making a Monkey out of Human Immunodeficiency Virus/Simian Immunodeficiency Virus Pathogenesis: Immune Cell Depletion Experiments as a Tool to Understand the Immune Correlates of Protection and Pathogenicity in HIV Infection

Viruses(2024)10.3390/v16060972

N/A

0DataRank · unranked

4 citations

Thaidra Gaufin, Cuiling Xu, Kevin D. Raehtz, Ruy M. Ribeiro, Ivona Pandrea +2 more

A multiscale model of the action of a capsid assembly modulator for the treatment of chronic hepatitis B

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.07.16.603658

N/A

0DataRank · unranked

2 citations

Tyler Cassidy, Ruy M. Ribeiro, Alan S. Perelson, Sarafa A. Iyaniwura

Modeling suggests SARS-CoV-2 rebound after nirmatrelvir-ritonavir treatment is driven by target cell preservation coupled with incomplete viral clearance

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.09.13.613000

N/A

0DataRank · unranked

2 citations

Ruy M. Ribeiro, Gregory E. Edelstein, Julie Boucau, Rockib Uddin, Caitlin Marino +20 more

Understanding early HIV-1 rebound dynamics following antiretroviral therapy interruption: The importance of effector cell expansion

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.05.03.592318

N/A

0DataRank · unranked

0 citations

Tin Phan, Jessica M. Conway, Nicole Pagane, Jasmine Kreig, Narmada Sambaturu +5 more

Modeling suggests SARS-CoV-2 rebound after nirmatrelvir-ritonavir treatment is driven by target cell preservation coupled with incomplete viral clearance

Journal of Virology(2025)10.1128/jvi.01623-24

N/A

0DataRank · unranked

18 citations

Ruy M. Ribeiro, Gregory E. Edelstein, Julie Boucau, Rockib Uddin, Caitlin Marino +20 more

Transcription of hepatitis B surface antigen shifts from cccDNA to integrated HBV DNA during treatment

Journal of Clinical Investigation(2025)10.1172/jci184243

N/A

0DataRank · unranked

17 citations

Tanner Grudda, Giulia Belluccini, Mark Anderson, Gavin Cloherty, Hyon S. Hwang +11 more

Post-recovery viral shedding shapes wastewater-based epidemiological inferences

Communications Medicine(2025)10.1038/s43856-025-00908-5

N/A

0DataRank · unranked

7 citations

Samantha Brozak, Bruce Pell, Stanca M. Ciupe, Ruian Ke, Ruy M. Ribeiro +6 more

Longitudinal seroprevalence of Crimean-Congo hemorrhagic fever virus in Southern Uganda

Emerging Microbes & Infections(2025)10.1080/22221751.2025.2465315

N/A

0DataRank · unranked

3 citations

Victor Ssempijja, Ruy M. Ribeiro, Carmen Molina-Parı́s, Gerald Katushabe, Josephine Nalwadda +10 more

SIV proviruses seeded later in infection are harbored in short-lived CD4+ T cells

Cell Reports(2025)10.1016/j.celrep.2025.115663

N/A

0DataRank · unranked

3 citations

Emily J. Fray, Vivek Hariharan, Fengting Wu, Carolin Zitzmann, Francesco R. Simonetti +8 more

Dynamics of natural and pharmacologic control of an SIV variant with an envelope trafficking defect

The Journal of Experimental Medicine(2025)10.1084/jem.20251172

N/A

0DataRank · unranked

0 citations

Carolin Zitzmann, Meghana Ravi, Ciara Armstrong, Milica Moskovljevic, Hannah P. Moore +18 more

HIV influences clustering and intracellular replication of hepatitis C virus

Journal of Viral Hepatitis(2020)10.1111/jvh.13429

N/A

0DataRank · unranked

9 citations

Alan S. Perelson, Abraham J. Kandathil, Jeffrey Quinn, Ashwin Balagopal, Ruy M. Ribeiro +1 more

Modeling viral and drug kinetics: Hepatitis C virus treatment with pegylated interferon alfa-2b

Carolina Digital Repository (University of North Carolina at Chapel Hill)(2020)10.17615/wcsr-3j80

N/A

0DataRank · unranked

0 citations

Kimberly A. Powers, Preeti Golia, Narendra M. Dixit, Alan S. Perelson, Andrew H. Talal +1 more

Viral Load Kinetics of Severe Acute Respiratory Syndrome Coronavirus 2 in Hospitalized Individuals With Coronavirus Disease 2019

Open Forum Infectious Diseases(2021)10.1093/ofid/ofab153

N/A

0DataRank · unranked

23 citations

James P. Flynn, Alexandra Rosenthal, Hannah Jordan, Yijia Li, Rida Chishti +95 more

Zika virus dynamics: Effects of inoculum dose, the innate immune response and viral interference

PLoS Computational Biology(2021)10.1371/journal.pcbi.1008564

N/A

0DataRank · unranked

21 citations

Dan H. Barouch, Jérémie Guedj, Ruy M. Ribeiro, Alan S. Perelson, Katharine Best

Antiretroviral therapy for HIV and intrahepatic hepatitis C virus replication

AIDS(2021)10.1097/qad.0000000000003116

N/A

0DataRank · unranked

2 citations

Ashish Goyal, Ruy M. Ribeiro, Guido Massaccesi, Justin R. Bailey, David L. Thomas +2 more

Emergence of SARS-CoV-2 Resistance with Monoclonal Antibody Therapy

medRxiv(2021)10.1101/2021.09.03.21263105

N/A

0DataRank · unranked

21 citations

Kara W Chew, Rinki Deo, James P. Flynn, James Regan, Charles R. Crain +23 more

In vivo kinetics of SARS-CoV-2 infection and its relationship with a person’s infectiousness

medRxiv(2021)10.1101/2021.06.26.21259581

N/A

0DataRank · unranked

18 citations

Carolin Zitzmann, David D. Ho, Ruy M. Ribeiro, Alan S. Perelson, Ruian Ke

Modeling Amantadine Treatment of Inuenza A Virus In Vitro

Figshare(2021)10.32920/14638224.v1

N/A

0DataRank · unranked

4 citations

James J. McSharry, George L. Drusano, Jack Nguyen, Gregory T. Went, Ruy M. Ribeiro +2 more

A simple model of COVID-19 explains disease severity and the effect of treatments

medRxiv(2021)10.1101/2021.11.29.21267028

N/A

0DataRank · unranked

2 citations

Tyler Cassidy, P.-H. Chu, Alan S. Perelson, Ruy M. Ribeiro, Ruian Ke +1 more

Modeling Amantadine Treatment of Inuenza A Virus In Vitro

(2021)10.32920/14638224

N/A

0DataRank · unranked

2 citations

James J. McSharry, George L. Drusano, Jack Nguyen, Gregory T. Went, Ruy M. Ribeiro +2 more

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(2022)10.1073/pnas.2120326119

N/A

0DataRank · unranked

98 citations

Francesco R. Simonetti, Subul Beg, Natalie F. McMyn, Weiwei Dai, Niklas Bachmann +9 more

Risk of BA.5 Infection among Persons Exposed to Previous SARS-CoV-2 Variants

New England Journal of Medicine(2022)10.1056/nejmc2209479

N/A

0DataRank · unranked

75 citations

Ruy M. Ribeiro, Pedro Pinto Leite, Pedro Casaca, Eugénia Fernandes, Carlos Antunes +4 more