The role of the genomics core is to support the research projects carried out by the center by providing state-of-the-art transcription profiling and data mining capabilities over a wide range of sample types. The center will have access to a facility that has been in continuous operation for the past 7 years. It has benefited from a continuous investment on the part of the Baylor Health Care System and has at its disposal state of the art genomic analysis instruments and IT infrastructure. Data will be generated on the highthrough and cost-effective Illumina BeadArray platform in a strictly controlled laboratory environment to insure the highest data quality and reproducibility. A team of bioinformaticians has been integrated to the core in order to develop and maintain the data management infrastructure that constitutes the backbone of its operation. Custom data management and mining solutions are available for the optimal exploitation of large volumes of microarray data. Bioinformatics and biostatistics support will also be made available to individual investigators for the analysis of their microarray results. The microarray core at BUR has carried out projects at the interface between the fields of genomics and immunology, and gained significant expertise in profiling: a) blood of patients with a wide range of diseases;b) small cell numbers isolated from tissues or cell cultures;c) blood exposed in vitro to a wide range of innate stimuli;and d) blood cultivated in the presence of antigenic peptides. Support will be provided for the following projects: Project 1 (Banchereau): profiling genes expressed in in vitro generated CD8+ CTL;Project 2 (Palucka): a) profiling T and B cells isolated from vaccinated animals; b) profiling human mucosal dendritic cells (DCs) isolated from humouse samples;Project 3 (Sekaly): profiling genes expressed in CD8+ CTL isolated from vaccinated patients;Project 4 (Legrand): a) profiling antigen specific immune-reactivity in the blood of non human primates (NHP), before and after vaccine administration;b) profiling human mucosal DCs isolated from NHP and human samples;Technology development 1 (Zurawski): microarray analyses will be performed in order to study the activation properties of the various DC targeting vaccines on DCs. Technology development 2 (Pascual): antigens specific B cells will be isolated from mucosal samples and analyzed with microarrays to establish their phenotype.
Systems scale transcriptional profiling has become a mainstay for the study of the human immune system. The expertise involved in the preparation of samples, data acquisition and analysis is considerable and well beyond the capabilities of individual laboratories. Centralization is also driven by: a) the high cost of instrumentation and associated IT infrastructure, and b) higher reproducibility/comparability of the data.
|Yu, Chun I; Becker, Christian; Metang, Patrick et al. (2014) Human CD141+ dendritic cells induce CD4+ T cells to produce type 2 cytokines. J Immunol 193:4335-43|
|Banchereau, Romain; Baldwin, Nicole; Cepika, Alma-Martina et al. (2014) Transcriptional specialization of human dendritic cell subsets in response to microbial vaccines. Nat Commun 5:5283|
|Chaussabel, Damien; Baldwin, Nicole (2014) Democratizing systems immunology with modular transcriptional repertoire analyses. Nat Rev Immunol 14:271-80|
|Joo, HyeMee; Li, Dapeng; Dullaers, Melissa et al. (2014) C-type lectin-like receptor LOX-1 promotes dendritic cell-mediated class-switched B cell responses. Immunity 41:592-604|
|Alsina, Laia; Israelsson, Elisabeth; Altman, Matthew C et al. (2014) A narrow repertoire of transcriptional modules responsive to pyogenic bacteria is impaired in patients carrying loss-of-function mutations in MYD88 or IRAK4. Nat Immunol 15:1134-42|
|Epaulard, Olivier; Adam, Lucille; Poux, Candice et al. (2014) Macrophage- and neutrophil-derived TNF-? instructs skin langerhans cells to prime antiviral immune responses. J Immunol 193:2416-26|
|Schmitt, Nathalie; Bentebibel, Salah-Eddine; Ueno, Hideki (2014) Phenotype and functions of memory Tfh cells in human blood. Trends Immunol 35:436-42|
|Duluc, Dorothée; Joo, HyeMee; Ni, Ling et al. (2014) Induction and activation of human Th17 by targeting antigens to dendritic cells via dectin-1. J Immunol 192:5776-88|
|Mejias, Asuncion; Suarez, Nicolas M; Ramilo, Octavio (2014) Detecting specific infections in children through host responses: a paradigm shift. Curr Opin Infect Dis 27:228-35|
|Schmitt, Nathalie; Liu, Yang; Bentebibel, Salah-Eddine et al. (2014) The cytokine TGF-? co-opts signaling via STAT3-STAT4 to promote the differentiation of human TFH cells. Nat Immunol 15:856-65|
Showing the most recent 10 out of 87 publications