Ruian Ke

Works (10)

Updated: August 17th, 2023 21:16

2021 journal article

Autocrine and paracrine interferon signalling as 'ring vaccination' and 'contact tracing' strategies to suppress virus infection in a host

By: G. Lavigne n, H. Russell  n, B. Sherry n & R. Ke n

author keywords: interferon; innate immunity; ring vaccination; partial differential equations; cellular automata
MeSH headings : Antiviral Agents; Contact Tracing; Humans; Immunity, Innate; Interferons; Vaccination; Virus Diseases
TL;DR: It is argued that the interferon response can be seen as a parallel to population-level epidemic prevention strategies such as ‘contact tracing’ or ‘ring vaccination’ and may have implications for the outbreak control at the population scale more broadly. (via Semantic Scholar)
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Source: Web Of Science
Added: April 5, 2021

2019 journal article

Principles of Effective and Robust Innate Immune Response to Viral Infections: A Multiplex Network Analysis

FRONTIERS IN IMMUNOLOGY, 10.

By: Y. Huang n, H. Dai n  & R. Ke n

author keywords: immune response; interferon; viral infection; mathematical modeling; multiplex network
MeSH headings : Humans; Immunity, Innate; Interferon Type I / immunology; Models, Immunological; Signal Transduction / immunology; Virus Diseases / immunology; Viruses / immunology
TL;DR: It is shown that in general, the IFN response works effectively to stop viral infection when virus infection spreads spatially (a most likely scenario for initial virus infection of a host at the peripheral tissue). (via Semantic Scholar)
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Source: Web Of Science
Added: August 12, 2019

2019 journal article

Within-host infectious disease models accommodating cellular coinfection, with an application to influenza

VIRUS EVOLUTION, 5(2).

By: K. Koelle *, A. Farrell  n, C. Brooke * & R. Ke n

author keywords: influenza virus; within-host dynamics; macroparasite model; cellular coinfection; viral complementation
TL;DR: The within-host model structure developed here provides an alternative approach for modeling within- Host viral load dynamics and allows for a new class of questions to be addressed that consider the effects of cellular coinfection, collective viral interactions, and viral complementation in within- host viral dynamics and evolution. (via Semantic Scholar)
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Source: Web Of Science
Added: January 13, 2020

2018 journal article

Determinants of the efficacy of HIV latency-reversing agents and implications for drug and treatment design

JCI INSIGHT, 3(20).

By: R. Ke n, J. Conway *, D. Margolis * & A. Perelson *

MeSH headings : Anti-HIV Agents / pharmacology; Anti-HIV Agents / therapeutic use; CD4-Positive T-Lymphocytes / drug effects; CD4-Positive T-Lymphocytes / immunology; CD4-Positive T-Lymphocytes / virology; Drug Design; Drug Therapy, Combination / methods; HIV Antigens / metabolism; HIV Infections / drug therapy; HIV Infections / immunology; HIV Infections / virology; HIV-1 / drug effects; HIV-1 / physiology; Humans; Models, Biological; Pulse Therapy, Drug; Treatment Outcome; Virus Latency / drug effects
TL;DR: A mathematical model that describes the dynamics of latently infected cells under LRA treatment showed that, in addition to increasing the immune recognition and clearance of infected cells, the duration of HIV antigen expression plays an important role in determining the efficacy of LRAs, especially if effective clearance is achieved. (via Semantic Scholar)
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Source: Web Of Science
Added: November 12, 2018

2018 conference paper

Network analysis of virus-innate immune interaction within a host

2018 52nd Annual Conference on Information Sciences and Systems (CISS).

By: Y. Huang n, M. Dai *, Z. Zhang * & R. Ke n

TL;DR: It is found that interferon response can effectively stop the spread of the virus or reduce the final size of viral infection when the two networks largely overlap each other. (via Semantic Scholar)
Source: NC State University Libraries
Added: August 6, 2018

2018 journal article

Variation in cell-associated unspliced HIV RNA on antiretroviral therapy is associated with the circadian regulator brain-and-muscle-ARNT-like-1

AIDS, 32(15), 2119–2128.

By: C. Chang *, V. Naranbhai *, J. Stern*, M. Roche *, A. Dantanarayana*, R. Ke*, S. Tennakoon*, A. Solomon* ...

author keywords: brain-and-muscle-ARNT-like-1; circadian rhythm; HIV; HIV latency; HIV transcription; stress; unspliced RNA
MeSH headings : ARNTL Transcription Factors / biosynthesis; ARNTL Transcription Factors / genetics; Anti-Retroviral Agents / therapeutic use; Blood Cells / virology; Cells, Cultured; Female; Gene Expression Profiling; HIV / growth & development; HIV Infections / drug therapy; HIV Infections / virology; Host-Pathogen Interactions; Humans; Male; Middle Aged; RNA, Viral / analysis; Real-Time Polymerase Chain Reaction; Transcription, Genetic
TL;DR: The basal level of HIV transcription on ART can vary significantly and is modulated by the circadian regulator BMAL-1, amongst other factors. (via Semantic Scholar)
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Source: Web Of Science
Added: January 7, 2019

2017 journal article

NS5A inhibitors unmask differences in functional replicase complex half-life between different hepatitis C virus strains

PLOS PATHOGENS, 13(6).

By: T. Benzine*, R. Brandt n, W. Lovell *, D. Yamane *, P. Neddermann *, R. De Francesco *, S. Lemon *, A. Perelson *, R. Ke n, D. McGivern *

MeSH headings : Half-Life; Hepacivirus / chemistry; Hepacivirus / classification; Hepacivirus / drug effects; Hepacivirus / physiology; Hepatitis C / virology; Humans; Kinetics; Viral Nonstructural Proteins / antagonists & inhibitors; Viral Nonstructural Proteins / chemistry; Viral Nonstructural Proteins / genetics; Viral Nonstructural Proteins / metabolism; Virus Assembly / drug effects; Virus Replication / drug effects
TL;DR: In nascent RNA capture assays, the rate of RNA synthesis decline following NS5A inhibitor addition was significantly faster for H77D compared to H77S.3 indicating different half-lives of functional RCs. (via Semantic Scholar)
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Source: Web Of Science
Added: August 6, 2018

2017 journal article

On the Death Rate of Abortively Infected Cells: Estimation from Simian-Human Immunodeficiency Virus Infection

JOURNAL OF VIROLOGY, 91(18).

By: R. Ke n, M. Cong*, D. Li *, J. Garcia-Lerma * & A. Perelson *

author keywords: abortive infection; SHIV; mathematical modeling; viral kinetics
MeSH headings : Animals; Cell Death; DNA, Viral / analysis; HIV / growth & development; Macaca mulatta; Models, Theoretical; RNA, Viral / blood; Simian Acquired Immunodeficiency Syndrome / immunology; Simian Acquired Immunodeficiency Syndrome / virology; Simian Immunodeficiency Virus / growth & development; T-Lymphocytes / virology; Viral Load
TL;DR: The results provide the first in vivo quantitative estimates of parameters characterizing abortive infection and support the notion that abortedive infection represents an important mechanism underlying progressive CD4+ T cell depletion in vivo. (via Semantic Scholar)
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3. Good Health and Well-being (Web of Science; OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2017 journal article

Transcriptional Reprogramming during Effector-to-Memory Transition Renders CD4(+) T Cells Permissive for Latent HIV-1 Infection

IMMUNITY, 47(4), 766-+.

By: L. Shan *, K. Deng *, H. Gao *, S. Xing*, A. Capoferri *, C. Durand *, S. Rabi *, G. Laird * ...

MeSH headings : CD4-Positive T-Lymphocytes / immunology; CD4-Positive T-Lymphocytes / metabolism; CD4-Positive T-Lymphocytes / virology; Cells, Cultured; Cellular Reprogramming / genetics; Cellular Reprogramming / immunology; Cytokines / genetics; Cytokines / immunology; Female; Flow Cytometry; Gene Expression Profiling / methods; HIV-1 / immunology; HIV-1 / physiology; Host-Pathogen Interactions / immunology; Humans; Immunologic Memory / genetics; Immunologic Memory / immunology; Lymphocyte Activation / genetics; Lymphocyte Activation / immunology; Male; Reverse Transcriptase Polymerase Chain Reaction; T-Lymphocytes, Cytotoxic / immunology; T-Lymphocytes, Cytotoxic / metabolism; Transcription, Genetic; Virus Latency / immunology; Virus Replication / immunology
TL;DR: A unique set of properties of CD4+ T cells undergoing effector‐to‐memory transition including temporary upregulation of CCR5 expression and rapid downregulation of cellular gene transcription are described, allowing the establishment of latency. (via Semantic Scholar)
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Source: Web Of Science
Added: August 6, 2018

2015 journal article

Modeling the Effects of Vorinostat In Vivo Reveals both Transient and Delayed HIV Transcriptional Activation and Minimal Killing of Latently Infected Cells

PLOS PATHOGENS, 11(10).

By: R. Ke n, S. Lewin *, J. Elliott* & A. Perelson *

MeSH headings : HIV / drug effects; HIV / genetics; Histone Deacetylase Inhibitors / pharmacology; Humans; Hydroxamic Acids / pharmacology; Transcriptional Activation / drug effects; Virus Latency; Vorinostat
TL;DR: The results show that HIV transcription is increased transiently during the first few hours or days of treatment and that there is a delay before a sustained increase of HIV transcription, whose duration varies among study participants and may depend on the long term impact of vorinostat on host gene expression. (via Semantic Scholar)
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Source: Web Of Science
Added: August 6, 2018

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