The molecular and epigenetic mechanisms of innate lymphoid cell (ILC) memory and its relevance for asthma

NR4A transcription factors limit CAR T cell function in solid tumours

(2019) Joyce Chen et al.   NATURE

NR4A2 inhibits activation of ERK signaling and cell growth in response to beta-adrenergic stimulation in adult rat cardiomyocytes

(2019) Sadia Ashraf et al.   AMERICAN JOURNAL OF PHYSIOLOGY-CELL PHYSIOLOGY

Sequestration of microRNA-mediated target repression by the Ago2-associated RNA binding protein FAM120A

(2019) Tim J Kelly et al.   RNA

GPCR desensitization: Acute and prolonged phases

(2018) Sudarshan Rajagopal et al.   CELLULAR SIGNALLING

Steroid resistance of airway type 2 innate lymphoid cells from patients with severe asthma: The role of thymic stromal lymphopoietin

(2018) Sucai Liu et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

ZEB1, ZEB2, and the miR-200 family form a counterregulatory network to regulate CD8+T cell fates

(2018) Tianxia Guan et al.   JOURNAL OF EXPERIMENTAL MEDICINE

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

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Long-Term Persistence of Exhausted CD8 T Cells in Chronic Infection Is Regulated by MicroRNA-155

(2018) Erietta Stelekati et al.   Cell Reports

Epigenetic control of innate and adaptive immune memory

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

Experimental asthma persists in IL-33 receptor knockout mice because of the emergence of thymic stromal lymphopoietin–driven IL-9 + and IL-13 + type 2 innate lymphoid cell subpopulations

(2017) Mukesh Verma et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Lamina propria group 2 innate lymphoid cells impair the antibacterial defense of burned mice to enterococcal translocation

(2017) Ichiaki Ito et al.   JOURNAL OF LEUKOCYTE BIOLOGY

The neuropeptide NMU amplifies ILC2-driven allergic lung inflammation

(2017) Antonia Wallrapp et al.   NATURE

The neuropeptide neuromedin U stimulates innate lymphoid cells and type 2 inflammation

(2017) Christoph S. N. Klose et al.   NATURE

An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues

(2017) M Ryan Corces et al.   NATURE METHODS

A shared Runx1-bound Zbtb16 enhancer directs innate and innate-like lymphoid lineage development

(2017) Ai-Ping Mao et al.   Nature Communications

A CREB-MPP7-AMOT Regulatory Axis Controls Muscle Stem Cell Expansion and Self-Renewal Competence

(2017) Lydia Li et al.   Cell Reports

Testosterone Attenuates Group 2 Innate Lymphoid Cell-Mediated Airway Inflammation

(2017) Jacqueline-Yvonne Cephus et al.   Cell Reports

Molecular Analysis of a Short-term Model of β-Glucans-Trained Immunity Highlights the Accessory Contribution of GM-CSF in Priming Mouse Macrophages Response

(2017) Sarah Walachowski et al.   Frontiers in Immunology

Protein–protein interactions of the LIM-only protein FHL2 and functional implication of the interactions relevant in cardiovascular disease

(2016) M. Khang Tran et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

Allergen-Experienced Group 2 Innate Lymphoid Cells Acquire Memory-like Properties and Enhance Allergic Lung Inflammation

(2016) Itziar Martinez-Gonzalez et al.   IMMUNITY

BACH2 regulates CD8+ T cell differentiation by controlling access of AP-1 factors to enhancers

(2016) Rahul Roychoudhuri et al.   NATURE IMMUNOLOGY

Innate lymphoid cells as regulators of immunity, inflammation and tissue homeostasis

(2016) Christoph S N Klose et al.   NATURE IMMUNOLOGY

Trained immunity: A program of innate immune memory in health and disease

(2016) M. G. Netea et al.   SCIENCE

Deficiency of FHL2 attenuates airway inflammation in mice and genetic variation associates with human bronchial hyper-responsiveness

(2015) K. Kurakula et al.   ALLERGY

IL13 Receptor  2 Signaling Requires a Scaffold Protein, FAM120A, to Activate the FAK and PI3K Pathways in Colon Cancer Metastasis

(2015) R. A. Bartolome et al.   CANCER RESEARCH

Persistence of asthma requires multiple feedback circuits involving type 2 innate lymphoid cells and IL-33

(2015) Christina A. Christianson et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

The prostaglandin D2 receptor CRTH2 regulates accumulation of group 2 innate lymphoid cells in the inflamed lung

(2015) E D Tait Wojno et al.   Mucosal Immunology

Group 2 innate lymphoid cells license dendritic cells to potentiate memory TH2 cell responses

(2015) Timotheus Y F Halim et al.   NATURE IMMUNOLOGY

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Skewer: a fast and accurate adapter trimmer for next-generation sequencing paired-end reads

(2014) Hongshan Jiang et al.   BMC BIOINFORMATICS

Regulation of Steatohepatitis and PPARγ Signaling by Distinct AP-1 Dimers

(2014) Sebastian C. Hasenfuss et al.   Cell Metabolism

MHCII-Mediated Dialog between Group 2 Innate Lymphoid Cells and CD4+ T Cells Potentiates Type 2 Immunity and Promotes Parasitic Helminth Expulsion

(2014) Christopher J. Oliphant et al.   IMMUNITY

Alternaria-derived serine protease activity drives IL-33–mediated asthma exacerbations

(2014) Robert J. Snelgrove et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

mTOR- and HIF-1 -mediated aerobic glycolysis as metabolic basis for trained immunity

(2014) S.-C. Cheng et al.   SCIENCE

Epigenetic programming of monocyte-to-macrophage differentiation and trained innate immunity

(2014) S. Saeed et al.   SCIENCE

A mouse model links asthma susceptibility to prenatal exposure to diesel exhaust

(2013) Sarah Manners et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

BACH2 represses effector programs to stabilize Treg-mediated immune homeostasis

(2013) Rahul Roychoudhuri et al.   NATURE

Sterol regulatory element–binding proteins are essential for the metabolic programming of effector T cells and adaptive immunity

(2013) Yoko Kidani et al.   NATURE IMMUNOLOGY

BEDOPS: high-performance genomic feature operations

(2012) Shane Neph et al.   BIOINFORMATICS

A Validated Regulatory Network for Th17 Cell Specification

(2012) Maria Ciofani et al.   CELL

AP-1 is involved in ICOS gene expression downstream of TCR/CD28 and cytokine receptor signaling

(2012) Masashi Watanabe et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

IL-33 citrine reporter mice reveal the temporal and spatial expression of IL-33 during allergic lung inflammation

(2012) Clare S. Hardman et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

Differential roles for Nr4a1 and Nr4a2 in object location vs. object recognition long-term memory

(2012) S. E. McNulty et al.   LEARNING & MEMORY

Transcription factor RORα is critical for nuocyte development

(2012) See Heng Wong et al.   NATURE IMMUNOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

JunD/AP-1-Mediated Gene Expression Promotes Lymphocyte Growth Dependent on Interleukin-7 Signal Transduction

(2012) Shannon M. Ruppert et al.   PLoS One

FHL2 Protein Is a Novel Co-repressor of Nuclear Receptor Nur77

(2011) Kondababu Kurakula et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Innate lymphoid cells promote lung-tissue homeostasis after infection with influenza virus

(2011) Laurel A Monticelli et al.   NATURE IMMUNOLOGY

The nuclear orphan receptor Nr4a2 induces Foxp3 and regulates differentiation of CD4+ T cells

(2011) Takashi Sekiya et al.   Nature Communications

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

The expanding family of innate lymphoid cells: regulators and effectors of immunity and tissue remodeling

(2010) Hergen Spits et al.   NATURE IMMUNOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

A Novel RNA-Binding Protein, Ossa/C9orf10, Regulates Activity of Src Kinases To Protect Cells from Oxidative Stress-Induced Apoptosis

(2008) M. Tanaka et al.   MOLECULAR AND CELLULAR BIOLOGY

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY

A Nurr1 point mutant, implicated in Parkinson’s disease, uncouples ERK1/2-dependent regulation of tyrosine hydroxylase transcription

(2007) Kirsten X. Jacobsen et al.   NEUROBIOLOGY OF DISEASE