MGV: a generic graph viewer for comparative omics data

Stephan Symons, Kay Nieselt
2011 Computer applications in the biosciences : CABIOS  
Motivation: High throughput transcriptomics, proteomics and metabolomics methods have revolutionized our knowledge of biological systems. To gain knowledge from comparative omics studies, strong data integration and visualization features are required. Knowledge gained from these studies is often available in the form of graphs, and their visualization is especially useful in a wide range of systems biology topics, including pathway analysis, interaction networks, or gene models. Especially, it
more » ... els. Especially, it is necessary to compare biological models with measured data. This allows the identification of new models and new insights into existing ones. Results: We present MGV, a versatile generic graph viewer for multiomics data. MGV is integrated into Mayday (Battke et al., 2010). It extends Mayday's visual analytics capabilites by integrating a wide range of biological models, high throughput data and meta information to display enriched graphs that combine data and models. A wide range of tools is available for visualization of nodes, dataaware graph layout as well as automatic and manual aggregation and refinement of the data. We show the usefulness of MGV applied to several problems, including differential expression of alternative transcripts, transcription factor interaction, cross study clustering comparison and integration of transcriptomics and metabolomics data for pathway analysis. Availability: MGV is open source software implemented in Java and freely available as a part of Mayday at www.microarray-analysis.org/mayday. Contact:
doi:10.1093/bioinformatics/btr351 pmid:21666268 fatcat:cgy5ro27wfhrjbcxdltmcynity