An Atlas of Immune Cell Exhaustion in HIV-Infected Individuals Revealed by Single-Cell Transcriptomics

Single-Cell Genomics: A Stepping Stone for Future Immunology Discoveries

(2018) Amir Giladi et al.   CELL

Epigenomic-Guided Mass Cytometry Profiling Reveals Disease-Specific Features of Exhausted CD8 T Cells

(2018) Bertram Bengsch et al.   IMMUNITY

PBMC fixation and processing for Chromium single-cell RNA sequencing

(2018) Jinguo Chen et al.   Journal of Translational Medicine

Integrating single-cell transcriptomic data across different conditions, technologies, and species

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Clonal CD4+ T cells in the HIV-1 latent reservoir display a distinct gene profile upon reactivation

(2018) Lillian B. Cohn et al.   NATURE MEDICINE

Exponential scaling of single-cell RNA-seq in the past decade

(2018) Valentine Svensson et al.   Nature Protocols

Defining the Transcriptional Landscape during Cytomegalovirus Latency with Single-Cell RNA Sequencing

(2018) Miri Shnayder et al.   mBio

Transcriptomic signatures of NK cells suggest impaired responsiveness in HIV-1 infection and increased activity post-vaccination

(2018) Margaret C. Costanzo et al.   Nature Communications

Single-Cell RNA-Seq Reveals Transcriptional Heterogeneity in Latent and Reactivated HIV-Infected Cells

(2018) Monica Golumbeanu et al.   Cell Reports

Single-cell mRNA quantification and differential analysis with Census

(2017) Xiaojie Qiu et al.   NATURE METHODS

Single-cell analysis identifies cellular markers of the HIV permissive cell

(2017) Sylvie Rato et al.   PLoS Pathogens

Blocking type I interferon signaling enhances T cell recovery and reduces HIV-1 reservoirs

(2016) Liang Cheng et al.   JOURNAL OF CLINICAL INVESTIGATION

Targeting type I interferon–mediated activation restores immune function in chronic HIV infection

(2016) Anjie Zhen et al.   JOURNAL OF CLINICAL INVESTIGATION

Revealing the vectors of cellular identity with single-cell genomics

(2016) Allon Wagner et al.   NATURE BIOTECHNOLOGY

TIGIT Marks Exhausted T Cells, Correlates with Disease Progression, and Serves as a Target for Immune Restoration in HIV and SIV Infection

(2016) Glen M. Chew et al.   PLoS Pathogens

NK Cells in HIV Disease

(2016) Eileen Scully et al.   Current HIV/AIDS Reports

Overcoming T cell exhaustion in infection and cancer

(2015) Kristen E. Pauken et al.   TRENDS IN IMMUNOLOGY

The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells

(2014) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Chronic Exposure to Type-I IFN under Lymphopenic Conditions Alters CD4 T Cell Homeostasis

(2014) Cecile Le Saout et al.   PLoS Pathogens

T-bet and Eomes Are Differentially Linked to the Exhausted Phenotype of CD8+ T Cells in HIV Infection

(2014) Marcus Buggert et al.   PLoS Pathogens

PD-1 blockade during chronic SIV infection reduces hyperimmune activation and microbial translocation in rhesus macaques

(2012) Ravi Dyavar Shetty et al.   JOURNAL OF CLINICAL INVESTIGATION

CD160 and PD-1 Co-Expression on HIV-Specific CD8 T Cells Defines a Subset with Advanced Dysfunction

(2012) Yoav Peretz et al.   PLoS Pathogens

Responsiveness of HIV-specific CD4 T cells to PD-1 blockade

(2011) F. Porichis et al.   BLOOD

Epithelial adhesion molecules can inhibit HIV-1-specific CD8+ T-cell functions

(2011) H. Streeck et al.   BLOOD

Antigen-Dependent and -Independent Mechanisms of T and B Cell Hyperactivation during Chronic HIV-1 Infection

(2011) A. Haas et al.   JOURNAL OF VIROLOGY

Transcription factor T-bet represses expression of the inhibitory receptor PD-1 and sustains virus-specific CD8+ T cell responses during chronic infection

(2011) Charlly Kao et al.   NATURE IMMUNOLOGY

T cell exhaustion

(2011) E John Wherry   NATURE IMMUNOLOGY

A human memory T cell subset with stem cell–like properties

(2011) Luca Gattinoni et al.   NATURE MEDICINE

Rebound of plasma viremia following cessation of antiretroviral therapy despite profoundly low levels of HIV reservoir: implications for eradication

(2010) Tae-Wook Chun et al.   AIDS

The NK receptor KLRG1 is dispensable for virus-induced NK and CD8+ T-cell differentiation and function in vivo

(2010) Carsten Gründemann et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

Revisiting Immune Exhaustion During HIV Infection

(2010) Alka Khaitan et al.   Current HIV/AIDS Reports

Tim-3 expression defines a novel population of dysfunctional T cells with highly elevated frequencies in progressive HIV-1 infection

(2008) R. Brad Jones et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Evidence for HIV-associated B cell exhaustion in a dysfunctional memory B cell compartment in HIV-infected viremic individuals

(2008) Susan Moir et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Functions of natural killer cells

(2008) Eric Vivier et al.   NATURE IMMUNOLOGY

HIV infection-associated immune activation occurs by two distinct pathways that differentially affect CD4 and CD8 T cells

(2008) M. Catalfamo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA