Clonal expansion and epigenetic inheritance of long-lasting NK cell memory

The transcription factor Bcl11b promotes both canonical and adaptive NK cell differentiation

(2021) Tim D. Holmes et al.   Science Immunology

Modular, efficient and constant-memory single-cell RNA-seq preprocessing

(2021) Páll Melsted et al.   NATURE BIOTECHNOLOGY

Deconvoluting global cytokine signaling networks in natural killer cells

(2021) Gabriela M. Wiedemann et al.   NATURE IMMUNOLOGY

Integrated analysis of multimodal single-cell data

(2021) Yuhan Hao et al.   CELL

Establishment, maintenance, and recall of inflammatory memory

(2021) Samantha B. Larsen et al.   Cell Stem Cell

Fate mapping of single NK cells identifies a type 1 innate lymphoid-like lineage that bridges innate and adaptive recognition of viral infection

(2021) Sophie Flommersfeld et al.   IMMUNITY

Scalable, multimodal profiling of chromatin accessibility, gene expression and protein levels in single cells

(2021) Eleni P. Mimitou et al.   NATURE BIOTECHNOLOGY

Guidelines for the use of flow cytometry and cell sorting in immunological studies (third edition)

(2021) Andrea Cossarizza et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

Single-cell chromatin state analysis with Signac

(2021) Tim Stuart et al.   NATURE METHODS

BAMboozle removes genetic variation from human sequence data for open data sharing

(2021) Christoph Ziegenhain et al.   Nature Communications

C/EBPβ-Dependent Epigenetic Memory Induces Trained Immunity in Hematopoietic Stem Cells

(2020) Bérengère de Laval et al.   Cell Stem Cell

Memory Sequencing Reveals Heritable Single-Cell Gene Expression Programs Associated with Distinct Cellular Behaviors

(2020) Sydney M. Shaffer et al.   CELL

Massively parallel single-cell mitochondrial DNA genotyping and chromatin profiling

(2020) Caleb A. Lareau et al.   NATURE BIOTECHNOLOGY

A sensitive assay for dNTPs based on long synthetic oligonucleotides, EvaGreen dye and inhibitor-resistant high-fidelity DNA polymerase

(2020) Janne Purhonen et al.   NUCLEIC ACIDS RESEARCH

Single-cell metabolic profiling of human cytotoxic T cells

(2020) Felix J. Hartmann et al.   NATURE BIOTECHNOLOGY

Early emergence of T central memory precursors programs clonal dominance during chronic viral infection

(2020) Simon Grassmann et al.   NATURE IMMUNOLOGY

A discriminative learning approach to differential expression analysis for single-cell RNA-seq

(2019) Vasilis Ntranos et al.   NATURE METHODS

Lineage Tracing in Humans Enabled by Mitochondrial Mutations and Single-Cell Genomics

(2019) Leif S. Ludwig et al.   CELL

Cytomegalovirus Infection Drives Avidity Selection of Natural Killer Cells

(2019) Nicholas M. Adams et al.   IMMUNITY

Distinct Surface Expression of Activating Receptor Ly49H Drives Differential Expansion of NK Cell Clones upon Murine Cytomegalovirus Infection

(2019) Simon Grassmann et al.   IMMUNITY

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

AP-1 activity induced by co-stimulation is required for chromatin opening during T cell activation

(2019) Masashi Yukawa et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Fast, sensitive and accurate integration of single-cell data with Harmony

(2019) Ilya Korsunsky et al.   NATURE METHODS

Heterogeneity of human bone marrow and blood natural killer cells defined by single-cell transcriptome

(2019) Chao Yang et al.   Nature Communications

Impact of CMV Infection on Natural Killer Cell Clonal Repertoire in CMV-Naïve Rhesus Macaques

(2019) Lauren L. Truitt et al.   Frontiers in Immunology

Modulation of Myelopoiesis Progenitors Is an Integral Component of Trained Immunity

(2018) Ioannis Mitroulis et al.   CELL

BCG Educates Hematopoietic Stem Cells to Generate Protective Innate Immunity against Tuberculosis

(2018) Eva Kaufmann et al.   CELL

Immunological memory: What's in a name?

(2018) Thomas Pradeu et al.   IMMUNOLOGICAL REVIEWS

Peptide-specific recognition of human cytomegalovirus strains controls adaptive natural killer cells

(2018) Quirin Hammer et al.   NATURE IMMUNOLOGY

Natural killer cell specificity for viral infections

(2018) Quirin Hammer et al.   NATURE IMMUNOLOGY

Plasma cell differentiation is controlled by multiple cell division-coupled epigenetic programs

(2018) Christopher D. Scharer et al.   Nature Communications

ARID5B regulates metabolic programming in human adaptive NK cells

(2018) Frank Cichocki et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Epigenetic control of innate and adaptive immune memory

(2018) Colleen M. Lau et al.   NATURE IMMUNOLOGY

Gene Regulatory Programs Conferring Phenotypic Identities to Human NK Cells

(2018) Patrick L. Collins et al.   CELL

High-Dimensional Single-Cell Analysis Identifies Organ-Specific Signatures and Conserved NK Cell Subsets in Humans and Mice

(2018) Adeline Crinier et al.   IMMUNITY

chromVAR: inferring transcription-factor-associated accessibility from single-cell epigenomic data

(2017) Alicia N Schep et al.   NATURE METHODS

Simultaneous epitope and transcriptome measurement in single cells

(2017) Marlon Stoeckius et al.   NATURE METHODS

Acquired somatic mutations in PNH reveal long-term maintenance of adaptive NK cells independent of HSPCs

(2016) Marcus A. F. Corat et al.   BLOOD

Tracking the fate of antigen-specific versus cytokine-activated natural killer cells after cytomegalovirus infection

(2016) Tsukasa Nabekura et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

Critical Role of CD2 Co-stimulation in Adaptive Natural Killer Cell Responses Revealed in NKG2C-Deficient Humans

(2016) Lisa L. Liu et al.   Cell Reports

Cytomegalovirus Infection Drives Adaptive Epigenetic Diversification of NK Cells with Altered Signaling and Effector Function

(2015) Heinrich Schlums et al.   IMMUNITY

Human Cytomegalovirus Drives Epigenetic Imprinting of the IFNG Locus in NKG2Chi Natural Killer Cells

(2014) Merlin Luetke-Eversloh et al.   PLoS Pathogens

NK cell responses to cytomegalovirus infection lead to stable imprints in the human KIR repertoire and involve activating KIRs

(2013) V. Beziat et al.   BLOOD

Latent Enhancers Activated by Stimulation in Differentiated Cells

(2013) Renato Ostuni et al.   CELL

Disparate Individual Fates Compose Robust CD8+ T Cell Immunity

(2013) V. R. Buchholz et al.   SCIENCE

Genetic and Environmental Determinants of Human NK Cell Diversity Revealed by Mass Cytometry

(2013) A. Horowitz et al.   Science Translational Medicine

Proinflammatory cytokine signaling required for the generation of natural killer cell memory

(2012) Joseph C. Sun et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Bacille Calmette-Guerin induces NOD2-dependent nonspecific protection from reinfection via epigenetic reprogramming of monocytes

(2012) J. Kleinnijenhuis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cytomegalovirus reactivation after allogeneic transplantation promotes a lasting increase in educated NKG2C+ natural killer cells with potent function

(2011) B. Foley et al.   BLOOD

Expansion of a unique CD57+NKG2Chi natural killer cell subset during acute human cytomegalovirus infection

(2011) S. Lopez-Verges et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

CD62L expression identifies a unique subset of polyfunctional CD56dim NK cells

(2010) K. Juelke et al.   BLOOD

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

Functionally distinct subsets of human NK cells and monocyte/DC-like cells identified by coexpression of CD56, CD7, and CD4

(2009) J. M. Milush et al.   BLOOD

Adaptive immune features of natural killer cells

(2009) Joseph C. Sun et al.   NATURE

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY