title: High-throughput data analysis and data integration for vaccine trials.
abstract: Rational vaccine development can benefit from biomarker studies, which help to predict, optimize and evaluate the immunogenicity of vaccines and ultimately provide surrogate endpoints for vaccine trials. Systems biology approaches facilitate acquisition of both simple biomarkers and complex biosignatures. Yet, evaluation of high-throughput (HT) data requires a plethora of tools for data integration and analysis. In this review, we present an overview of methods for evaluation and integration of large amounts of data collected in vaccine trials from similar and divergent molecular HT techniques, such as transcriptomic, proteomic and metabolic profiling. We will describe a selection of relevant statistical and bioinformatic approaches that are frequently associated with systems biology. We will present data dimension reduction techniques, functional analysis approaches and methods of integrating heterogeneous HT data. Finally, we will provide a few examples of applications of these techniques in vaccine research and development.
authors.affiliation: Department of Immunology, Max Planck Institute for Infection Biology, Charitéplatz 1, D-10117, Berlin, Germany. Electronic address: january.weiner@mpiib-berlin.mpg.de.
authors.forename: January
authors.initials: J
authors.lastname: Weiner
authors.affiliation: Department of Immunology, Max Planck Institute for Infection Biology, Charitéplatz 1, D-10117, Berlin, Germany. Electronic address: kaufmann@mpiib-berlin.mpg.de.
authors.forename: Stefan H E
authors.initials: SH
authors.lastname: Kaufmann
authors.affiliation: Department of Immunology, Max Planck Institute for Infection Biology, Charitéplatz 1, D-10117, Berlin, Germany.
authors.forename: Jeroen
authors.initials: J
authors.lastname: Maertzdorf
mesh_terms: D015415:Biomarkers; D035843:Biomedical Research; D019295:Computational Biology / Q000379:methods; D003627:Data Interpretation, Statistical; D057225:Data Mining / Q000379:methods; D020869:Gene Expression Profiling; D006801:Humans; D040901:Proteomics; D049490:Systems Biology / Q000379:methods*; D014612:Vaccines / Q000276:immunology*
chemical_list: D015415:Biomarkers; D014612:Vaccines
keywords: Data integration; Systems biology; Systems vaccinology