KEGG Atlas
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KEGG Atlas is a new graphical interface to the global metabolism map and all the other pathway maps with zooming and navigation capabilities. The latest version of KEGG Atlas released in April 2009 has been developed using the Google Web Toolkit (GWT). It handles the PNG image file generated from the KGML+ (KGML+SVG) file with the canvas element in HTML 5. Unfortunately, KEGG Atlas does not work with Internet Explorer, because IE does not support the canvas element. Windows users are requested to install Firefox, Chrome, Safari, or Opera to use KEGG Atlas.
Launch KEGG Atlas (Internet Explorer is not supported)
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About KEGG Pathway Maps
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The KEGG pathway map is manually drawn with in-house software called KegSketch, which generates the KGML+ file. This file is an SVG file containing graphics information and also a KGML file containing KEGG entry, relation, and reaction information. Basic graphical elements in the KEGG pathway maps are:
- boxes (or lines in metabolic pathways) - gene products (proteins) associated with K numbers
- circles - other molecules, usally chemical compounds identified by C numbers
Each pathway map is identified by the combination of 2-4 letter code and 5 digit number (see KEGG Identifiers). The prefix has the following meaning:
- map - reference pathway map
- ko - KO (KEGG Orthology) pathway map
- ec - EC (EC number) pathway map
- rn - reaction pathway map
- org - organism-specific pathway map
Only the reference pathway map is manually drawn; all other maps are computationally generated. For metabolic pathways, each box (or line) in the reference map is linked to the K number (KO identifeir), the EC number, and the R number (reaction identifier). The KO, EC, and reaction maps are linked to only one of them. For all metabolic and non-metabolic maps, K numbers are converted to gene identifiers in each organism to generate organism-specific pathways.
The global metabolism map (map01100) is created by manually combining over 100 existing metabolic pathway maps. The current global metabolism map is available in both KEGG Atlas and the regular image map viewer. All previous versions only for KEGG Atlas are obsolete.
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About BRITE Functional Hierarchies
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The BRITE functional hierarchies contain tab-delimited fields, which can be handled by the desktop application KegHier but not by the current hierarchical text browser available on the web. We will implement a KegHier-like interface in KEGG Atlas.
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Last updated: August 24, 2009
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