Novel multiparameter correlates of Coxiella burnetii infection and vaccination identified by longitudinal deep immune profiling

[1]  Yan Zhang,et al.  MHC-II-restricted, CD4+ T cell-dependent and -independent mechanisms are required for vaccine-induced protective immunity against Coxiella burnetii. , 2019, Infection and immunity.

[2]  Stephen Li,et al.  Automated Data Cleanup for Mass Cytometry , 2019, Cytometry. Part A : the journal of the International Society for Analytical Cytology.

[3]  Yvan Saeys,et al.  CytoNorm: A Normalization Algorithm for Cytometry Data , 2019, Cytometry. Part A : the journal of the International Society for Analytical Cytology.

[4]  Malgorzata Nowicka,et al.  CyTOF workflow: differential discovery in high-throughput high-dimensional cytometry datasets. , 2019, F1000Research.

[5]  A. Sluder,et al.  Standardized guinea pig model for Q fever vaccine reactogenicity , 2018, PloS one.

[6]  V. Caron,et al.  United states. , 2018, Nursing standard (Royal College of Nursing (Great Britain) : 1987).

[7]  Ruurd van der Zee,et al.  Lactobacillus rhamnosus GG-Derived Soluble Mediators Modulate Adaptive Immune Cells , 2018, Front. Immunol..

[8]  J. Sprent,et al.  Phenotypic and Functional Changes of Peripheral Ly6C+ T Regulatory Cells Driven by Conventional Effector T Cells , 2018, Front. Immunol..

[9]  C. Hunter,et al.  Cytokine- and TCR-Mediated Regulation of T Cell Expression of Ly6C and Sca-1 , 2018, The Journal of Immunology.

[10]  A. B. Lyons,et al.  Absence of Tumor Necrosis Factor Supports Alternative Activation of Macrophages in the Liver after Infection with Leishmania major , 2018, Front. Immunol..

[11]  A. Sluder,et al.  Application and utility of mass cytometry in vaccine development , 2018, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

[12]  Kevin R. Moon,et al.  Exploring single-cell data with deep multitasking neural networks , 2017, Nature Methods.

[13]  A. Sluder,et al.  Q-vaxcelerate: A distributed development approach for a new Coxiella burnetii vaccine , 2017, Human vaccines & immunotherapeutics.

[14]  R. Tibshirani,et al.  An immune clock of human pregnancy , 2017, Science Immunology.

[15]  A. D. De Groot,et al.  An immunoinformatics-derived DNA vaccine encoding human class II T cell epitopes of Ebola virus, Sudan virus, and Venezuelan equine encephalitis virus is immunogenic in HLA transgenic mice , 2017, Human vaccines & immunotherapeutics.

[16]  S. Robson,et al.  The ectonucleotidases CD39 and CD73: Novel checkpoint inhibitor targets , 2017, Immunological reviews.

[17]  G. Núñez,et al.  IL-22 controls iron-dependent nutritional immunity against systemic bacterial infections , 2017, Science Immunology.

[18]  D. Raoult,et al.  From Q Fever to Coxiella burnetii Infection: a Paradigm Change , 2016, Clinical Microbiology Reviews.

[19]  Jun Zhao,et al.  Removal of batch effects using distribution‐matching residual networks , 2016, Bioinform..

[20]  J. Samuel,et al.  Identification of Coxiella burnetii CD8+ T-Cell Epitopes and Delivery by Attenuated Listeria monocytogenes as a Vaccine Vector in a C57BL/6 Mouse Model , 2016, The Journal of infectious diseases.

[21]  F. Quintana,et al.  Regulation of the T Cell Response by CD39. , 2016, Trends in immunology.

[22]  Nicolas Tchitchek,et al.  SPADEVizR: an R package for visualization, analysis and integration of SPADE results , 2016, Bioinform..

[23]  G. Nolan,et al.  Automated Mapping of Phenotype Space with Single-Cell Data , 2016, Nature Methods.

[24]  M. Haniffa,et al.  Human and Mouse Mononuclear Phagocyte Networks: A Tale of Two Species? , 2015, Front. Immunol..

[25]  M. Blackman,et al.  Functional Heterogeneity in the CD4+ T Cell Response to Murine γ-Herpesvirus 68 , 2015, The Journal of Immunology.

[26]  C. Hunter,et al.  Diverse Roles for T-bet in the Effector Responses Required for Resistance to Infection , 2015, The Journal of Immunology.

[27]  D. Wolfe,et al.  Vaccination against Q fever for biodefense and public health indications , 2014, Front. Microbiol..

[28]  D. Raoult,et al.  Granulomatous response to Coxiella burnetii, the agent of Q fever: the lessons from gene expression analysis , 2014, Front. Cell. Infect. Microbiol..

[29]  Malika Charrad,et al.  NbClust: An R Package for Determining the Relevant Number of Clusters in a Data Set , 2014 .

[30]  A. D. De Groot,et al.  Partial pathogen protection by tick-bite sensitization and epitope recognition in peptide-immunized HLA DR3 transgenic mice , 2014, Human vaccines & immunotherapeutics.

[31]  Roland Eils,et al.  circlize implements and enhances circular visualization in R , 2014, Bioinform..

[32]  Douglas R. Call,et al.  Transcriptome analysis of Vibrio parahaemolyticus in type III secretion system 1 inducing conditions , 2014, Front. Cell. Infect. Microbiol..

[33]  Kwangjoon Jeong,et al.  Molecular characterization of vulnibactin biosynthesis in Vibrio vulnificus indicates the existence of an alternative siderophore , 2013, Front. Microbiol..

[34]  L. Joosten,et al.  Limited humoral and cellular responses to Q fever vaccination in older adults with risk factors for chronic Q fever. , 2013, The Journal of infection.

[35]  Graham M Lord,et al.  T-bet: a bridge between innate and adaptive immunity , 2013, Nature Reviews Immunology.

[36]  A. D. De Groot,et al.  Immunization with cross-conserved H1N1 influenza CD4+ T-cell epitopes lowers viral burden in HLA DR3 transgenic mice , 2013, Human vaccines & immunotherapeutics.

[37]  J. van der Giessen,et al.  Inactivation or clearance of Coxiella burnetii in rat serum samples to enable safe serological testing , 2013, Journal of basic microbiology.

[38]  P. Marrack,et al.  T-box transcription factor T-bet, a key player in a unique type of B-cell activation essential for effective viral clearance , 2013, Proceedings of the National Academy of Sciences.

[39]  J. Samuel,et al.  Molecular pathogenesis of the obligate intracellular bacterium Coxiella burnetii , 2013, Nature Reviews Microbiology.

[40]  A. Timen,et al.  Implementation of a Q fever vaccination program for high-risk patients in the Netherlands. , 2013, Vaccine.

[41]  F. Regateiro,et al.  CD73 and adenosine generation in the creation of regulatory microenvironments , 2013, Clinical and experimental immunology.

[42]  J. Stenos,et al.  An analysis of Q fever patients 6 years after an outbreak in Newport, Wales, UK. , 2012, QJM : monthly journal of the Association of Physicians.

[43]  B. Schimmer,et al.  Time-course of antibody responses against Coxiella burnetii following acute Q fever , 2012, Epidemiology and Infection.

[44]  Joshua S. Self,et al.  Virulence of pathogenic Coxiella burnetii strains after growth in the absence of host cells. , 2011, Vector borne and zoonotic diseases.

[45]  Hailong Meng,et al.  Differential expression of Ly6C and T-bet distinguish effector and memory Th1 CD4(+) cell properties during viral infection. , 2011, Immunity.

[46]  R. Heinzen,et al.  Life on the outside: the rescue of Coxiella burnetii from its host cell. , 2011, Annual review of microbiology.

[47]  Bjoern Peters,et al.  Identification of CD4+ T Cell Epitopes in C. burnetii Antigens Targeted by Antibody Responses , 2011, PloS one.

[48]  C. Alam,et al.  Ly6C supports preferential homing of central memory CD8+ T cells into lymph nodes , 2011, European journal of immunology.

[49]  K. Toellner,et al.  IFN-γ produced by CD8 T cells induces T-bet–dependent and –independent class switching in B cells in responses to alum-precipitated protein vaccine , 2010, Proceedings of the National Academy of Sciences.

[50]  A. Harmsen,et al.  Role of CD4+ and CD8+ T Cells in Clearance of Primary Pulmonary Infection with Coxiella burnetii , 2010, Infection and Immunity.

[51]  R. Heinzen,et al.  A systematic approach to evaluate humoral and cellular immune responses to Coxiella burnetii immunoreactive antigens. , 2009, Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases.

[52]  Steven J. M. Jones,et al.  Circos: an information aesthetic for comparative genomics. , 2009, Genome research.

[53]  M. Kuhn.  Building Predictive Models in R Using the caret Package , 2008 .

[54]  S. Wittmer,et al.  Cutting Edge: T-bet and IL-27R Are Critical for In Vivo IFN-γ Production by CD8 T Cells during Infection1 , 2008, The Journal of Immunology.

[55]  J. Samuel,et al.  Mechanisms of Vaccine-Induced Protective Immunity against Coxiella burnetii Infection in BALB/c Mice1 , 2007, The Journal of Immunology.

[56]  D. Durrheim,et al.  A review of the efficacy of human Q fever vaccine registered in Australia. , 2007, New South Wales public health bulletin.

[57]  P. Rossini,et al.  Expression of ectonucleotidase CD39 by Foxp3+ Treg cells: hydrolysis of extracellular ATP and immune suppression. , 2007, Blood.

[58]  V. Kuchroo,et al.  Adenosine generation catalyzed by CD39 and CD73 expressed on regulatory T cells mediates immune suppression , 2007, The Journal of experimental medicine.

[59]  J. Samuel,et al.  T Cells Are Essential for Bacterial Clearance, and Gamma Interferon, Tumor Necrosis Factor Alpha, and B Cells Are Crucial for Disease Development in Coxiella burnetii Infection in Mice , 2007, Infection and Immunity.

[60]  P. Dufour,et al.  Effect of vaccination with phase I and phase II Coxiella burnetii vaccines in pregnant goats. , 2005, Vaccine.

[61]  H. Zou,et al.  Regularization and variable selection via the elastic net , 2005 .

[62]  Zerai Woldehiwet,et al.  Q fever (coxiellosis): epidemiology and pathogenesis. , 2004, Research in veterinary science.

[63]  A. Bamezai.  Mouse Ly-6 proteins and their extended family: markers of cell differentiation and regulators of cell signaling. , 2004, Archivum immunologiae et therapiae experimentalis.

[64]  R. Weinstein,et al.  Q fever: a biological weapon in your backyard. , 2003, The Lancet. Infectious diseases.

[65]  Scott R. Lillibridge,et al.  Public Health Assessment of Potential Biological Terrorism Agents , 2002, Emerging infectious diseases.

[66]  S. Jalkanen,et al.  CD73 Engagement Promotes Lymphocyte Binding to Endothelial Cells Via a Lymphocyte Function-Associated Antigen-1-Dependent Mechanism1 , 2000, The Journal of Immunology.

[67]  L. Bogatzki,et al.  Naive T Cells Transiently Acquire a Memory-like Phenotype during Homeostasis-Driven Proliferation , 2000, The Journal of experimental medicine.

[68]  Laurie H Glimcher,et al.  A Novel Transcription Factor, T-bet, Directs Th1 Lineage Commitment , 2000, Cell.

[69]  D. Raoult,et al.  Q Fever 1985‐1998: Clinical and Epidemiologic Features of 1,383 Infections , 2000, Medicine.

[70]  M. Maurin,et al.  Q Fever , 1999, Clinical Microbiology Reviews.

[71]  J. Miyazaki,et al.  A T cell activation antigen, Ly6C, induced on CD4+ Th1 cells mediates an inhibitory signal for secretion of IL‐2 and proliferation in peripheral immune responses , 1998, European journal of immunology.

[72]  G. Hämmerling,et al.  HLA-DRB1 polymorphism determines susceptibility to autoimmune thyroiditis in transgenic mice: definitive association with HLA- DRB1*0301 (DR3) gene , 1996, The Journal of experimental medicine.

[73]  J. Bluestone,et al.  Ly-6C is a marker of memory CD8+ T cells. , 1995, Journal of immunology.

[74]  M. Sandrin,et al.  Tissue expression, structure and function of the murine Ly‐6 family of molecules , 1995, Immunology and cell biology.

[75]  A. Izzo,et al.  Vaccine prophylaxis of abattoir-associated Q fever: eight years' experience in Australian abattoirs , 1990, Epidemiology and Infection.

[76]  A. Lucas,et al.  Antibodies to 5'-nucleotidase (CD73), a glycosyl-phosphatidylinositol-anchored protein, cause human peripheral blood T cells to proliferate. , 1989, Journal of immunology.

[77]  G. H. Scott,et al.  Animal models in Q fever: pathological responses of inbred mice to phase I Coxiella burnetii. , 1987, Journal of general microbiology.

[78]  Malgorzata Nowicka,et al.  CyTOF workflow: differential discovery in high-throughput high-dimensional cytometry datasets. , 2017, F1000Research.

[79]  R Core Team,et al.  R: A language and environment for statistical computing. , 2014 .

[80]  Geoffrey E. Hinton,et al.  Visualizing Data using t-SNE , 2008 .

[81]  Neil R Parker,et al.  Q fever. , 2006, Lancet.

[82]  G. Schönrich,et al.  Negative and positive selection by HLA-DR3(DRw17) molecules in transgenic mice , 2004, Immunogenetics.

[83]  Martin H. Schmidt,et al.  Epidemiology and Pathogenesis , 2001 .

[84]  F Nistal de Paz,et al.  [Q fever]. , 1994, Medicina clinica.

[85]  S. Schramek,et al.  Immunogenicity and reactogenicity of a Q fever chemovaccine in persons professionally exposed to Q fever in Czechoslovakia. , 1982, Bulletin of the World Health Organization.