Comparison of metabolic pathways using constraint graph drawing

Authors:
Falk Schreiber
Affiliations:
School of Information Technologies, University of Sydney, Madsen F09, Sydney, NSW 2006, Australia
Venue:
APBC '03 Proceedings of the First Asia-Pacific bioinformatics conference on Bioinformatics 2003 - Volume 19
Year:
2003

Citing 0
Cited 7

Hierarchical visualization of metabolic networks using virtual reality

Proceedings of the 2006 ACM international conference on Virtual reality continuum and its applications
Approximate labelled subtree homeomorphism

Journal of Discrete Algorithms
Conceptual modeling of genetic studies and pharmacogenetics

ICCSA'05 Proceedings of the 2005 international conference on Computational Science and Its Applications - Volume Part III
Biological networks: comparison, conservation, and evolutionary trees

RECOMB'06 Proceedings of the 10th annual international conference on Research in Computational Molecular Biology
Pathway preserving representation of metabolic networks

EuroVis'11 Proceedings of the 13th Eurographics / IEEE - VGTC conference on Visualization
Domain specific vs generic network visualization: an evaluation with metabolic networks

AUIC '11 Proceedings of the Twelfth Australasian User Interface Conference - Volume 117
Weighted graph comparison techniques for brain connectivity analysis

Proceedings of the SIGCHI Conference on Human Factors in Computing Systems

Quantified Score

Hi-index	0.00

Visualization

Abstract

Databases contain a large amount of data about metabolic pathways, in particular about similar pathways in different species. Biologists are familiar with visual representations of metabolic pathways. Visualizations help them to understand the complex relationships between the components of the pathways, to extract information from the data, and to compare pathways between different species. However, visual interfaces to metabolic pathway databases cannot cope well with the visual comparison of similar pathways in different species.This paper presents a new approach for the visual comparison of metabolic pathways using a constraint graph drawing algorithm. Using layout constraints the same parts of similar pathways in different species are placed side by side, thereby highlighting similarities and differences between these pathways. This visualization method can be used as a visual interface to databases and has been tested with data obtained from the BioPath system and from the KEGG database.