Modulation of Immune Signaling and Metabolism Highlights Host and Fungal Transcriptional Responses in Mouse Models of Invasive Pulmonary Aspergillosis

NLRX1 Regulates Effector and Metabolic Functions of CD4+T Cells

(2017) Andrew Leber et al.   JOURNAL OF IMMUNOLOGY

Solving Immunology?

(2017) Yoram Vodovotz et al.   TRENDS IN IMMUNOLOGY

Heterogeneity Confounds Establishment of “a” Model Microbial Strain

(2017) Nancy P. Keller   mBio

Filamentous fungal carbon catabolite repression supports metabolic plasticity and stress responses essential for disease progression

(2017) Sarah R. Beattie et al.   PLoS Pathogens

NLRP12 negatively regulates proinflammatory cytokine production and host defense against Brucella abortus

(2016) Tatiana N. Silveira et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

Bistability analyses of CD4+ T follicular helper and regulatory cells during Helicobacter pylori infection

(2016) Andrew Leber et al.   JOURNAL OF THEORETICAL BIOLOGY

KEGG: new perspectives on genomes, pathways, diseases and drugs

(2016) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Heterogeneity among Isolates Reveals that Fitness in Low Oxygen Correlates with Aspergillus fumigatus Virulence

(2016) Caitlin H. Kowalski et al.   mBio

Aspergillus fumigatus Photobiology Illuminates the Marked Heterogeneity between Isolates

(2016) Kevin K. Fuller et al.   mBio

T helper 2 response in allergic bronchopulmonary aspergillosis is not driven by specificAspergillusantigens

(2015) H. Jolink et al.   ALLERGY

RNAseq analysis of Aspergillus fumigatus in blood reveals a just wait and see resting stage behavior

(2015) Henriette Irmer et al.   BMC GENOMICS

Droplet Barcoding for Single-Cell Transcriptomics Applied to Embryonic Stem Cells

(2015) Allon M. Klein et al.   CELL

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets

(2015) Evan Z. Macosko et al.   CELL

The C-Type Lectin Receptor CLECSF8/CLEC4D Is a Key Component of Anti-Mycobacterial Immunity

(2015) Gillian J. Wilson et al.   Cell Host & Microbe

Pattern recognition pathways leading to a Th2 cytokine bias in allergic bronchopulmonary aspergillosis patients

(2015) K. L. Becker et al.   CLINICAL AND EXPERIMENTAL ALLERGY

Mitochondrial Phosphoenolpyruvate Carboxykinase Regulates Metabolic Adaptation and Enables Glucose-Independent Tumor Growth

(2015) Emma E. Vincent et al.   MOLECULAR CELL

Fixed single-cell transcriptomic characterization of human radial glial diversity

(2015) Elliot R Thomsen et al.   NATURE METHODS

Blocking CLEC14A-MMRN2 binding inhibits sprouting angiogenesis and tumour growth

(2015) P J Noy et al.   ONCOGENE

CD103+ Dendritic Cells Control Th17 Cell Function in the Lung

(2015) Teresa Zelante et al.   Cell Reports

FungiFun2: a comprehensive online resource for systematic analysis of gene lists from fungal species

(2014) S. Priebe et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Aspergillus fumigatus triggers innate immune response via NOD1 signaling in human corneal epithelial cells

(2014) Yuting Zhang et al.   EXPERIMENTAL EYE RESEARCH

Divergent Targets of Aspergillus fumigatus AcuK and AcuM Transcription Factors during GrowthIn Vitroversus Invasive Disease

(2014) Monsicha Pongpom et al.   INFECTION AND IMMUNITY

The Macrophage-Inducible C-Type Lectin, Mincle, Is an Essential Component of the Innate Immune Response to Candida albicans

(2014) C. A. Wells et al.   JOURNAL OF IMMUNOLOGY

Inhaled corticosteroids and Aspergillus fumigatus isolation in cystic fibrosis

(2014) Maria Noni et al.   MEDICAL MYCOLOGY

Virulence of the maize smutUstilago maydisis shaped by organ-specific effectors

(2014) Lena Schilling et al.   MOLECULAR PLANT PATHOLOGY

Systems Modeling of the Role of Interleukin-21 in the Maintenance of Effector CD4+ T Cell Responses during Chronic Helicobacter pylori Infection

(2014) A. Carbo et al.   mBio

Myeloid Derived Hypoxia Inducible Factor 1-alpha Is Required for Protection against Pulmonary Aspergillus fumigatus Infection

(2014) Kelly M. Shepardson et al.   PLoS Pathogens

The pH-Responsive PacC Transcription Factor of Aspergillus fumigatus Governs Epithelial Entry and Tissue Invasion during Pulmonary Aspergillosis

(2014) Margherita Bertuzzi et al.   PLoS Pathogens

ChIP-seq and In Vivo Transcriptome Analyses of the Aspergillus fumigatus SREBP SrbA Reveals a New Regulator of the Fungal Hypoxia Response and Virulence

(2014) Dawoon Chung et al.   PLoS Pathogens

Dectin-2 is predominately macrophage restricted and exhibits conspicuous expression during Aspergillus fumigatus invasion in human lung

(2013) He Sun et al.   CELLULAR IMMUNOLOGY

Strain Dependent Variation of Immune Responses to A. fumigatus: Definition of Pathogenic Species

(2013) Lisa Rizzetto et al.   PLoS One

Systems Modeling of Molecular Mechanisms Controlling Cytokine-driven CD4+ T Cell Differentiation and Phenotype Plasticity

(2013) Adria Carbo et al.   PLoS Computational Biology

Arginase Activity in the Blood of Patients with Visceral Leishmaniasis and HIV Infection

(2013) Yegnasew Takele et al.   PLoS Neglected Tropical Diseases

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Mechanisms and Evolution of Virulence in Oomycetes

(2012) Rays H.Y. Jiang et al.   Annual Review of Phytopathology

Qualimap: evaluating next-generation sequencing alignment data

(2012) Fernando García-Alcalde et al.   BIOINFORMATICS

Programmed cell death ligand 2 regulates TH9 differentiation and induction of chronic airway hyperreactivity

(2012) Jerome Kerzerho et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Cutting Edge: Impaired MHC Class I Expression in Mice Deficient for Nlrc5/Class I Transactivator

(2012) A. Biswas et al.   JOURNAL OF IMMUNOLOGY

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

InnateDB: systems biology of innate immunity and beyond—recent updates and continuing curation

(2012) Karin Breuer et al.   NUCLEIC ACIDS RESEARCH

Effector-Mediated Suppression of Chitin-Triggered Immunity by Magnaporthe oryzae Is Necessary for Rice Blast Disease

(2012) T. A. Mentlak et al.   PLANT CELL

Unraveling Cancer Chemoimmunotherapy Mechanisms by Gene and Protein Expression Profiling of Responses to Cyclophosphamide

(2011) F. Moschella et al.   CANCER RESEARCH

Global Transcriptome Changes Underlying Colony Growth in the Opportunistic Human Pathogen Aspergillus fumigatus

(2011) John G. Gibbons et al.   EUKARYOTIC CELL

Repeated Exposure to Aspergillus fumigatus Conidia Results in CD4+T Cell-Dependent and -Independent Pulmonary Arterial Remodeling in a Mixed Th1/Th2/Th17 Microenvironment That Requires Interleukin-4 (IL-4) and IL-10

(2011) Andrew B. Shreiner et al.   INFECTION AND IMMUNITY

Blastomyces dermatitidis Yeast Cells Inhibit Nitric Oxide Production by Alveolar Macrophage Inducible Nitric Oxide Synthase

(2011) Nicole M. Rocco et al.   INFECTION AND IMMUNITY

Melampsora larici-populina Transcript Profiling During Germination and Timecourse Infection of Poplar Leaves Reveals Dynamic Expression Patterns Associated with Virulence and Biotrophy

(2011) Sébastien Duplessis et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Transcriptional Programming and Functional Interactions within thePhytophthora sojaeRXLR Effector Repertoire

(2011) Qunqing Wang et al.   PLANT CELL

Role of Germination in Murine Airway CD8+ T-Cell Responses to Aspergillus Conidia

(2011) Steven P. Templeton et al.   PLoS One

Dual Organism Transcriptomics of Airway Epithelial Cells Interacting with Conidia of Aspergillus fumigatus

(2011) Jean L. Oosthuizen et al.   PLoS One

The Human C-Type Lectin-Like Receptor CLEC-1 is Upregulated by TGF-β and Primarily Localized in the Endoplasmic Membrane Compartment

(2011) S. Sattler et al.   SCANDINAVIAN JOURNAL OF IMMUNOLOGY

In vivo Hypoxia and a Fungal Alcohol Dehydrogenase Influence the Pathogenesis of Invasive Pulmonary Aspergillosis

(2011) Nora Grahl et al.   PLoS Pathogens

Role of Aspergillus fumigatus DvrA in Host Cell Interactions and Virulence

(2010) Daniele E. Ejzykowicz et al.   EUKARYOTIC CELL

Dectin-2 Recognition of α-Mannans and Induction of Th17 Cell Differentiation Is Essential for Host Defense against Candida albicans

(2010) Shinobu Saijo et al.   IMMUNITY

Coevolution of TH1, TH2, and TH17 Responses during Repeated Pulmonary Exposure toAspergillus fumigatusConidia

(2010) Benjamin J. Murdock et al.   INFECTION AND IMMUNITY

The anti-inflammatory and immunosuppressive effects of glucocorticoids, recent developments and mechanistic insights

(2010) Agnes E. Coutinho et al.   MOLECULAR AND CELLULAR ENDOCRINOLOGY

Aspergillus fumigatus AcuM regulates both iron acquisition and gluconeogenesis

(2010) Hong Liu et al.   MOLECULAR MICROBIOLOGY

Healthy Human T-Cell Responses to Aspergillus fumigatus Antigens

(2010) Neelkamal Chaudhary et al.   PLoS One

Aspergillus fumigatus Stimulates the NLRP3 Inflammasome through a Pathway Requiring ROS Production and the Syk Tyrosine Kinase

(2010) Najwane Saïd-Sadier et al.   PLoS One

Generation of IL-23 Producing Dendritic Cells (DCs) by Airborne Fungi Regulates Fungal Pathogenicity via the Induction of TH-17 Responses

(2010) Georgios Chamilos et al.   PLoS One

Fungal Effector Proteins

(2009) Ioannis Stergiopoulos et al.   Annual Review of Phytopathology

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Requisite Role for the Dectin-1  -Glucan Receptor in Pulmonary Defense against Aspergillus fumigatus

(2009) J. L. Werner et al.   JOURNAL OF IMMUNOLOGY

C-type lectin Mincle is an activating receptor for pathogenic fungus,Malassezia

(2009) Sho Yamasaki et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Arginase-1–Expressing Macrophages Suppress Th2 Cytokine–Driven Inflammation and Fibrosis

(2009) John T. Pesce et al.   PLoS Pathogens

Aspergillus fumigatusconidia upregulates NOD2 protein expression bothin vitroandin vivo1

(2008) Hui-jun ZHANG et al.   ACTA PHARMACOLOGICA SINICA

Tumor eradication after cyclophosphamide depends on concurrent depletion of regulatory T cells: a role for cycling TNFR2-expressing effector-suppressor T cells in limiting effective chemotherapy

(2008) Robbert G. van der Most et al.   CANCER IMMUNOLOGY IMMUNOTHERAPY

Toll-Like Receptor 9 Modulates Immune Responses to Aspergillus fumigatus Conidia in Immunodeficient and Allergic Mice

(2008) H. Ramaprakash et al.   INFECTION AND IMMUNITY

Aspergillus fumigatus Stimulates Leukocyte Adhesion Molecules and Cytokine Production by Endothelial Cells In Vitro and during Invasive Pulmonary Disease

(2008) L. Y. Chiang et al.   INFECTION AND IMMUNITY

Gliotoxin Production inAspergillus fumigatusContributes to Host‐Specific Differences in Virulence

(2008) Sara Spikes et al.   JOURNAL OF INFECTIOUS DISEASES

The novelCladosporium fulvumlysin motif effector Ecp6 is a virulence factor with orthologues in other fungal species

(2008) Melvin D. Bolton et al.   MOLECULAR MICROBIOLOGY

CLEC5A is critical for dengue-virus-induced lethal disease

(2008) Szu-Ting Chen et al.   NATURE

Genes Differentially Expressed in Conidia and Hyphae of Aspergillus fumigatus upon Exposure to Human Neutrophils

(2008) Janyce A. Sugui et al.   PLoS One

Genomic Islands in the Pathogenic Filamentous Fungus Aspergillus fumigatus

(2008) Natalie D. Fedorova et al.   PLoS Genetics