ArticleNature medicine2020
Integrated single-cell analysis of multicellular immune dynamics during hyperacute HIV-1 infection.
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Article in Nature medicine, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 104 papers.
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104citing papers in PubMed
8.1field-weighted citation impact, top 2% of its field
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Who cites it
104 citing papers in PubMed, 165 citations in OpenAlex.
- The single-cell epigenomic and transcriptional landscape of immunity to influenza vaccination.Cell · 2021Trial
- Single-cell sequencing reveals NK cell dysregulation during chronic HIV infection and identifies transitional NK cell cytotoxicity related to HIV reservoir decay.EBioMedicine · 2026Article
- Natural killer cells in pediatric HIV cure strategies: from viral control to immunotherapeutics.Current opinion in HIV and AIDS · 2026Review
- Viral load-driven systemic immune exhaustion is an enabler of antibody breadth in HIV infection.bioRxiv : the preprint server for biology · 2026Article
- Article
- Single-cell characterization of the CD8Virology journal · 2026Article
- A Deep Representation Learning Method for Quantitative Immune Defense Function Evaluation and Its Clinical Applications.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Single-Cell Transcriptomic Profile Associated with Sub-Subtype A6 and CRF63-02A6 HIV-1 Strain Infection.Viruses · 2026Article
- Dynamics of natural and pharmacologic control of an SIV variant with an envelope trafficking defect.The Journal of experimental medicine · 2026Article
- Genetics and environment distinctively shape the human immune cell epigenome.Nature genetics · 2026Article
- Resident CD49aScience advances · 2026Article
- A gene-expression module identifies circulating immune cells with enhanced recruitment to sites of inflammation.iScience · 2026Article
- Single-cell multi-omic landscape reveals anatomical-specific immune features in adult and pediatric sepsis.Nature immunology · 2026Article
- Single-cell transcriptome profiling reveals immunological fitness of HIV long-term non-progressors.Journal of virology · 2025Article
- Single-cell RNA sequencing reveals T and B cell-related immune features in foot and mouth disease virus-infected mice.Virulence · 2025Article
- Clinical application of single-cell RNA sequencing in disease and therapy.Clinical and translational medicine · 2025Review
- NKp30 and NKG2D contribute to natural killer cell-mediated recognition of HIV-infected cells.iScience · 2025Article
- Current insight into HIV-1 persistence from single-cell transcriptome profiling in acutely treated cohorts of infection.Current opinion in HIV and AIDS · 2025Review
- Article
- Simulating paired and longitudinal single-cell RNA sequencing data with rescueSim.Bioinformatics (Oxford, England) · 2025Article
44 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
21 authors at 8 institutions in 4 countries.
Samuel W KazerRagon Institute of MGH, MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-7380-9594
Toby P AicherRagon Institute of MGH, MIT and Harvard, Cambridge, MA, USA.
Daniel M MuemaAfrican Health Research Institute, Durban, South Africa.
Shaina L CarrollDepartment of Molecular and Cell Biology, University of California, Berkeley, CA, USA.
Jose Ordovas-MontanesRagon Institute of MGH, MIT and Harvard, Cambridge, MA, USA.
Vincent N MiaoRagon Institute of MGH, MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-4040-5171
Ang A TuBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0001-5145-7869
Carly G K ZieglerRagon Institute of MGH, MIT and Harvard, Cambridge, MA, USA.
Sarah K NyquistRagon Institute of MGH, MIT and Harvard, Cambridge, MA, USA.
Emily B WongAfrican Health Research Institute, Durban, South Africa.ORCID http://orcid.org/0000-0003-4755-5380
Nasreen IsmailHIV Pathogenesis Programme, Nelson R. Mandela School of Medicine, Doris Duke Medical Research Institute, University of KwaZulu-Natal, Durban, South Africa.
Mary DongRagon Institute of MGH, MIT and Harvard, Cambridge, MA, USA.
Amber MoodleyHIV Pathogenesis Programme, Nelson R. Mandela School of Medicine, Doris Duke Medical Research Institute, University of KwaZulu-Natal, Durban, South Africa.
Bonnie BergerComputer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge, MA, USA.
J Christopher LoveRagon Institute of MGH, MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0003-0921-3144
Krista L DongRagon Institute of MGH, MIT and Harvard, Cambridge, MA, USA.
Alasdair LeslieAfrican Health Research Institute, Durban, South Africa.
Zaza M NdhlovuRagon Institute of MGH, MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-2708-3315
Thumbi Ndung'uRagon Institute of MGH, MIT and Harvard, Cambridge, MA, USA.
Bruce D Walker *Ragon Institute of MGH, MIT and Harvard, Cambridge, MA, USA. BWALKER@mgh.harvard.edu.ORCID http://orcid.org/0000-0001-6122-9245
Alex K Shalek *Ragon Institute of MGH, MIT and Harvard, Cambridge, MA, USA. shalek@mit.edu.ORCID http://orcid.org/0000-0001-5670-8778
Broad Institute · USRagon Institute of MGH, MIT and Harvard · USAfrica Health Research Institute · ZAHoward Hughes Medical Institute · USUniversity of KwaZulu-Natal · ZAHarvard University · USMassachusetts Institute of Technology · USUniversity of California, Berkeley · US
Funding
Identification of neutralizing epitopes on SARS-CoV-2 spike for design of vaccines and small-molecule antiviralsUM1AI144462 · NIAID · SCRIPPS RESEARCH INSTITUTE, THE · PI BURTON, DENNIS R. · 2019 to 2025
$201.6MSupport Component D/Vaccine Discovery, Concept to ClinicUM1AI100663 · NIAID · SCRIPPS RESEARCH INSTITUTE, THE · PI BAROUCH, DAN H. · 2012 to 2018
$131.5MThe impact of HIV viral diversity and cellular immunity on HIV pathogenesisP30AI060354 · NIAID · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI RAJESH T GANDHI · 2004 to 2026
$94.4MRole of Negative Costimulation in Regulation of AutoimmunityP01AI039671 · NIAID · YALE UNIVERSITY · PI David A. Hafler · 1996 to 2026
$51.7MSystems investigation of vaccine responses in B cell depleted autoimmune patientsU19AI089992 · NIAID · YALE UNIVERSITY · PI David A. Hafler, RUTH R MONTGOMERY · 2010 to 2026
$50.4MMedical Scientist Training ProgramT32GM007753 · NIGMS · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI WALENSKY, LOREN DAVID · 1985 to 2021
$50.0MCenter for Cell CircuitsRM1HG006193 · NHGRI · BROAD INSTITUTE, INC. · PI BLAINEY, PAUL CLARK, HACOHEN, NIR · 2016 to 2020
$14.9MMOLECULAR BIOPHYSICS TRAINING GRANTT32GM008313 · NIGMS · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI MURTHY, VENKATESH N · 1989 to 2023
$14.6MNovel Biologic Therapies for GVHDR01HL095791 · NHLBI · SEATTLE CHILDREN'S HOSPITAL · PI KEAN, LESLIE S · 2010 to 2025
$13.3MQuantitative and functional characterization of therapeutic resistance in cancerU54CA217377 · NCI · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI MANALIS, SCOTT R · 2017 to 2021
$10.2MPathogenesis of Clade C HIV InfectionR37AI067073 · NIAID · MASSACHUSETTS GENERAL HOSPITAL · PI WALKER, BRUCE D · 2011 to 2020
$6.6MGraduate Training in Computational and Systems BiologyT32GM087237 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI BURGE, CHRISTOPHER B · 2009 to 2023
$4.6MHoward Hughes Medical InstituteNCI NIH HHS U54 CA217377NHGRI NIH HHS RM1 HG006193NHLBI NIH HHS R01 HL095791NHLBI NIH HHS R01 HL134539NIAID NIH HHS K08 AI118538NIAID NIH HHS P01 AI039671NIAID NIH HHS P30 AI060354NIAID NIH HHS R01 AI118544NIAID NIH HHS R01 AI138546NIAID NIH HHS R01 AI145305NIAID NIH HHS R37 AI067073NIAID NIH HHS U19 AI089992NIAID NIH HHS U24 AI118672NIAID NIH HHS UM1 AI100663NIAID NIH HHS UM1 AI144462NIDA NIH HHS R01 DA046277NIGMS NIH HHS T32 GM007753NIGMS NIH HHS T32 GM008313NIGMS NIH HHS T32 GM087237Wellcome TrustWellcome Trust 107752/Z/15/ZWellcome Trust 210662/Z/18/Z
Abstract
Cellular immunity is critical for controlling intracellular pathogens, but individual cellular dynamics and cell-cell cooperativity in evolving human immune responses remain poorly understood. Single-cell RNA-sequencing (scRNA-seq) represents a powerful tool for dissecting complex multicellular behaviors in health and disease
Indexed as
Cell CommunicationAcute DiseaseAcute-Phase ReactionAdolescentAdultFemaleGene Expression ProfilingGene Regulatory NetworksHIV-1HIV InfectionsHumansImmunity, CellularKiller Cells, NaturalLeukocytes, MononuclearLongitudinal StudiesSequence Analysis, RNA
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.