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Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516)

We propose a method for visualizing a set of related metabolic pathways across organisms using 2 1/2 dimensional graph visualization. Interdependent, two-dimensional layouts of each pathway are stacked on top of each other so that biologists get a full picture of subtle and significant differences among the pathways. The (dis)similarities between pathways are expressed by the Hamming distances of the underlying graphs which are used to compute a stacking order for the pathways. Layouts are determined by a global layout of the union of all pathway graphs using a variant of the proven Sugiyama approach for layered graph drawing. Our variant layout approach allows edges to cross if they appear in different graphs.

DOI: 10.2390/biecoll-jib-2004-2

Brandes, Ulrik ; Dwyer, Tim ; Schreiber, Falk  (2004)  Visual Understanding of Metabolic Pathways Across Organisms Using Layout in Two and a Half Dimensions. Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516), 1(1), 2004

Online-Journal: http://journal.imbio.de/index.php?paper_id=2
URL: http://biecoll.ub.uni-bielefeld.de/volltexte/2007/183

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