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. 2014 Feb 13:3:43.
doi: 10.12688/f1000research.3-43.v1. eCollection 2014.

KEGGViewer, a BioJS component to visualize KEGG Pathways

Jose M Villaveces  1 , Rafael C Jimenez  2 , Bianca H Habermann  1
Affiliations

KEGGViewer, a BioJS component to visualize KEGG Pathways

Jose M Villaveces et al. F1000Res. .

Abstract

Summary: Signaling pathways provide essential information on complex regulatory processes within the cell. They are moreover widely used to interpret and integrate data from large-scale studies, such as expression or functional screens. We present KEGGViewer a BioJS component to visualize KEGG pathways and to allow their visual integration with functional data.

Availability: KEGGViewer is an open-source tool freely available at the BioJS Registry. Instructions on how to use the tool are available at http://goo.gl/dVeWpg and the source code can be found at http://github.com/biojs/biojs and DOI: 10.5281/zenodo.7708.

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Conflict of interest statement

Competing interests: No competing interests were disclosed.

Figures

Figure 1.
Figure 1.
( a) KEGGViewer rendering of the insulin signaling pathway. Pathway components can be manually repositioned. Genes and pathways are represented as green and blue boxes respectively while purple dots represent chemical compounds. Relationships represent reactions e.g. activation, inhibtion or phosphorilation. ( b) Zoomed view of the insulin signaling pathway. Condition 1 is selected in the control panel (top right) and the expression range is set to consider expression levels between -0.43 and 0.43 to be non differentially expressed. Genes PPP1CA and PYGB in red are upregulated while GYS1 in blue is downregulated. GSK3B and CALML6 in green are non differentially expressed genes. The purple dot C00369 represents Starch.
See this image and copyright information in PMC

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