GSEA analysis was performed using ranked expression values for the displayed data set, and genesets were selected from the referenced publications.
Here, we collected a large TE-display data set in self-fertilizing Arabidopsis thaliana, and compared it to data gathered in outcrossing Arabidopsis lyrata.
Rapidly accumulating data from plant genome sequencing and comparative genetic mapping have led to new resources for accessing and displaying these data sets (eg. see Gramene [ 9], The Institute for Genome Research TIGRR) [ 10], The Arabidopsis Information Resource (TAIR) [ 11], the Brassica Genome Gateway [ 12].
The framework is also integrated with multiple tools, including the similarity search tools BLAST and SSAHA, the retrieval software EnsMart and the Distributed Annotation System (DAS) framework (32, 33) for sharing and displaying distributed data sets on any publicly available Ensembl instance (i.e. locally installed software).
Mapman is a user-driven tool which displays large data sets and displays gene expression experiments on diagrams of metabolic pathways or other processes.
The imported data may be visualized using Ondex (in.oxl format), which displays data as a set of linked graphs where nodes represent data objects (i.e., pathway, reaction, gene, enzyme, drug, KEGG ortholog group, etc).
Mobile devices have sufficient processing power to manipulate and display large data sets of radiological images.
Since MochiView can display multiple data sets on the same y-axis, the user can easily overlay multiple replicates of experimental ChIP data as well as control data sets (for example, ChIP in a deletion or RNAi-depleted strain or in a strain lacking the epitope tag targeted for immunoprecipitation).
For each step/interval of measurements over 5 minutes, the means and SDs of viscosity (from three samples), temperature and calculated DB-Einstein are displayed as data sets (means) and error bars (SDs) in Fig. 2. DB-Einstein (see Fig. 2c) is calculated using the measured temperature (see Fig. 2b) per interval along with the associated viscosity (see Fig. 2a) and estimated particle radius (196 nm).
