OmixAnalyzer – A Web-Based System for Management and Analysis of High-Throughput Omics Data Sets

These authors contributed equally to this paper. Abstract. Current projects in Systems Biology often produce a multitude of different high-throughput data sets that need to be managed, processed, and analyzed in an integrated fashion. In this paper, we present the OmixAnalyzer, a web-based tool for management and analysis of heterogeneous omics data sets. It currently supports gene microarrays, miR-NAs, and exon-arrays; support for mass spectrometry-based proteomics is on the way, and further types can easily be added due to its plug-andplay architecture. Distinct from competitor systems, the OmixAnalyzer supports management, analysis, and visualization of data sets; it features a mature system of access rights, handles heterogeneous data sets including metadata, supports various import and export formats, includes pipelines for performing all steps of data analysis from normalization and quality control to differential analysis, clustering and functional enrichment, and it is capable of producing high quality figures and reports. The system builds only on open source software and is available on request as sources or as a ready-to-run software image. An instance of the tool is available for testing at omixanalyzer.informatik.hu-berlin.de.