Biomedical research has become a data intensive field. Breakthrough technologies such as microarrays are now more robust and affordable than ever, while others introduced more recently such as high throughput sequencing are following the same path. Flow cytometry, multiplex protein assays, protein arrays, which are some of the other platforms we are proposing to employ to monitor responses to vaccination will add to the large volume of data generated in the context of this research program. The role of the data mining core is to support the studies carried out by the center by providing access to a facility capable of processing and analyzing large volumes of immune profiling data, and the capacity to innovate and develop novel analysis tools and approaches. The foundation of the work carried out by the data mining core will be laid out by a solid data management infrastructure. Furthermore, the core will unify analytic strategies across projects by offering standardized data mining and biostatistics analysis pipelines. These will be used for instance by our bioinformatics team for the processing of the large volumes of microarray data generated by each of the research projects. In addition, our biostatistics team on the basis of feasibility data presented in this application has designed analytic strategies that will be used to interrogate immune profiling data. The data mining core will also provide access to cutting-edge bioinformatics analysis tools and strategies in order to meet the unique set of challenges posed by the multi-dimensional molecular profiling approaches that this program will apply to the study of responses to vaccines. For this we will rely upon the bioinformatics team at the BIIR, which has demonstrated its capacity for innovation, as illustrated by its publication record. Furthermore, we will also count ofthe invaluable support of our collaborator. Dr. David Haussler, at UC Santa Cruz. His team will lends its extensive expertise with the alignment of high throughput sequencing data and the development of widely used web-based genomic data browsers.

Public Health Relevance

Given the large volume of data that will be generated in the context of this program project, the data mining core will play a key support role by providing access to an expert team of bioinformaticians, biostatisticians and software engineers.

National Institute of Health (NIH)
National Institute of Allergy and Infectious Diseases (NIAID)
Research Program--Cooperative Agreements (U19)
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Special Emphasis Panel (ZAI1-QV-I)
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Baylor Research Institute
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Hogstad, Brandon; Berres, Marie-Luise; Chakraborty, Rikhia et al. (2018) RAF/MEK/extracellular signal-related kinase pathway suppresses dendritic cell migration and traps dendritic cells in Langerhans cell histiocytosis lesions. J Exp Med 215:319-336
Cepika, Alma-Martina; Banchereau, Romain; Segura, Elodie et al. (2017) A multidimensional blood stimulation assay reveals immune alterations underlying systemic juvenile idiopathic arthritis. J Exp Med 214:3449-3466
Athale, Shruti; Banchereau, Romain; Thompson-Snipes, LuAnn et al. (2017) Influenza vaccines differentially regulate the interferon response in human dendritic cell subsets. Sci Transl Med 9:
Banchereau, Romain; Cepika, Alma-Martina; Banchereau, Jacques et al. (2017) Understanding Human Autoimmunity and Autoinflammation Through Transcriptomics. Annu Rev Immunol 35:337-370
Silvin, Aymeric; Yu, Chun I; Lahaye, Xavier et al. (2017) Constitutive resistance to viral infection in human CD141+ dendritic cells. Sci Immunol 2:
Schotsaert, Michael; GarcĂ­a-Sastre, Adolfo (2017) Inactivated influenza virus vaccines: the future of TIV and QIV. Curr Opin Virol 23:102-106
HIPC-CHI Signatures Project Team; HIPC-I Consortium (2017) Multicohort analysis reveals baseline transcriptional predictors of influenza vaccination responses. Sci Immunol 2:
Blohmke, Christoph J; Darton, Thomas C; Jones, Claire et al. (2016) Interferon-driven alterations of the host's amino acid metabolism in the pathogenesis of typhoid fever. J Exp Med 213:1061-77
Schmitt, Nathalie; Liu, Yang; Bentebibel, Salah-Eddine et al. (2016) Molecular Mechanisms Regulating T Helper 1 versus T Follicular Helper Cell Differentiation in Humans. Cell Rep 16:1082-1095
Bentebibel, Salah-Eddine; Khurana, Surender; Schmitt, Nathalie et al. (2016) ICOS(+)PD-1(+)CXCR3(+) T follicular helper cells contribute to the generation of high-avidity antibodies following influenza vaccination. Sci Rep 6:26494

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