Visual comparison of metabolic pathways

Schreiber, Falk

Visual comparison of metabolic pathways

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Date

2003

Publication type

Journal article

Publication status

Published

Published in

Journal of Visual Languages & Computing ; 14 (2003), 4. - pp. 327-340. - ISSN 1045-926X. - eISSN 1095-8533

Abstract

Biological 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. Pathway diagrams 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 which uses a graph drawing algorithm. Using layout constraints, identical 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. It supports different layout styles and has been tested with data obtained from the BioPath system and the KEGG database.

Subject (DDC)

004 Computer Science

Keywords

Metabolic pathways; Pathway comparison; Visualization; Graph drawing; Constraints

Cite This

ISO 690

SCHREIBER, Falk, 2003. Visual comparison of metabolic pathways. In: Journal of Visual Languages & Computing. 14(4), pp. 327-340. ISSN 1045-926X. eISSN 1095-8533. Available under: doi: 10.1016/S1045-926X(03)00030-2

BibTex

@article{Schreiber2003Visua-40693,
  year={2003},
  doi={10.1016/S1045-926X(03)00030-2},
  title={Visual comparison of metabolic pathways},
  number={4},
  volume={14},
  issn={1045-926X},
  journal={Journal of Visual Languages & Computing},
  pages={327--340},
  author={Schreiber, Falk}
}

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