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Bioinformatics. 2010 Sep 15;26(18):2340-1. doi: 10.1093/bioinformatics/btq407. Epub 2010 Jul 13.

Editing, validating and translating of SBGN maps.

Author information

1
Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Martin Luther University of Halle-Wittenberg, Halle, Germany.

Abstract

MOTIVATION:

The recently proposed Systems Biology Graphical Notation (SBGN) provides a standard for the visual representation of biochemical and cellular processes. It aims to support more efficient and accurate communication of biological knowledge between different research communities in the life sciences. However, to increase the use of SBGN, tools for editing, validating and translating SBGN maps are desirable.

RESULTS:

We present SBGN-ED, a tool which allows the creation of all three types of SBGN maps from scratch or the editing of existing maps, the validation of these maps for syntactical and semantical correctness, the translation of networks from the KEGG and MetaCrop databases into SBGN and the export of SBGN maps into several file and image formats.

AVAILABILITY:

SBGN-ED is freely available from http://vanted.ipk-gatersleben.de/addons/sbgn-ed. The web site contains also tutorials and example files.

PMID:
20628075
PMCID:
PMC2935428
DOI:
10.1093/bioinformatics/btq407
[Indexed for MEDLINE]
Free PMC Article

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