Analysis of complex biological systems by microarray based gene expression

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The NIA Gene Expression and Genomics Unit Core Facility: Molecular analysis of complex biological and disease processes has been transformed by the use of genome wide microarrays and with Next Generation Sequencing. The NIA Gene Expression and Genomics Unit core facility provides gene expression and NGS sequencing services and analysis of genomic data primarily to NIA intramural scientists and their collaborators. In addition, we collaborate directly with investigators in other NIH institutes as well as the extramural community. In fiscal year 2012 we completed 51 independent microarray experiments involving over 1,300 RNA samples. Our laboratory primarily uses Illumina bead chip microarrays for gene expression analysis and the hybridization and scanning equipment associated with the Illumina beadchip system. We also use Agilent, Exiqon, and other array formats as the experiment requires. We prepare RNA by a variety of methods and test RNA for quality and quantity using an Agilent 2100 Bioanalyzer. We have two NGS DNA sequencing systems, the Illumina GAII and the ION TORRENT PROTON. Bioinformatic analysis of microarray and DNA sequencing data is done with a variety of software programs and analytical approaches. These include BeadStudio, DIANE 6.0, GSEA, PAGE, Pathway Studio, Ingenuity Pathway Analysis, among others. Analysis is also supported with our analysis tools; PubMatrix, The Genetic Association database, BBID and Disease/Phenotype webPAGE.