GenVision
Organization and Visualization of Genomic Data
» Printable PDF overview for GenVision
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| Annotate Genomic Data | |
Compare Gene Functionality |
GenVision creates images of large quantities of data, so you can conveniently display annotations or comparisons of different data types. GenVision, which has already been used to publish a number of annotated genomes, has proven to be a very flexible and powerful tool for visualizing large or complex data sets. In addition to annotated genomes, GenVision can also be used visualize data comparisons. Pictured here are the comparisons of gene functionality in different species (top, right), and gene expression levels resulting from multiple expression experiments on the physical map (lower, left).
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| Compare Expression Levels | |
Display a Variety of Annotations |
As these few examples indicate, GenVision images may be customized in many ways. For example, you can present the same annotations as a one-page overview of a whole chromosome (circular image), or as a multi-page spread with individual annotations (linear image), as shown here for data from Escherichia coli K12. When you update your annotations, you can simply regenerate the image, with no need for additional editing.
Creating GenVision Images
Annotations can be displayed as histograms, arrows, text labels or graphs. Each of these elements is drawn in relation to the genomic sequence coordinates.
The "Panel" Concept for Displaying Data Sets
A GenVision image is built from one or more "Panels", where each panel is a set of related data. In the linear map above, the arrows represent transcripts, and all of these arrows are part of one "Arrow panel". Similarly, the colored boxes representing genes are part of one Histogram panel. The text labels for the genes comprise a third panel, and the scale is a fourth panel.
Format of GenVision Input Data
GenVision uses tab-delimited text files as data input.
GenVision is Provided as both Illustrator® Plug-in and Standalone Versions
The GenVision Plug-in for Adobe® Illustrator® - A completely graphical approach
The GenVision Plug-in allows you to create images from genomic data within Adobe® Illustrator®, on Macintosh or Windows systems. You can view the image in real time as you add data and make changes. Meanwhile, you have access to all of Adobe Illustrator's image editing tools. (Adobe Illustrator CS or CS2 must be purchased separately). (Very large data sets can exceed Illustrator's capacity to process them, and in these cases you will need the Windows Standalone version.)
The GenVision Standalone Application - A solution for larger data sets and for automation
The GenVision Standalone application, for Windows only, has the PostScript-creation capabilities of the Plug-in but does not display the image. Instead, the Standalone creates a PostScript file. Another application is then needed to view the PostScript. We recommend GSView and GhostScript, which are freeware. The standalone version of GenVision is suitable for users who have very large data sets, or who prefer not to obtain the Illustrator® software needed for the plug-in version.
» Printable PDF overview for GenVision
Plug-in for Adobe® Illustrator
Standalone Application