WORKSHOP: Systems Biology Graphical Notation and SBGN-ED

SBGN is an ongoing international collaboration to provide standard graphical/visual representations of biochemical and cellular processes in an unambiguous way. SBGN has three types notation: process description, entity relationship, and activity flow. The standard defines a comprehensive set of symbols, with precise semantics, together with detailed syntactic rules defining usage. It describes how such graphical information is to be represented in machine-readable form, so that proper storage, exchange, and reproduction of graphical representation are ensured. The aim of the tutorial is to provide participants with an understanding of what SBGN is, what problems it is designed to cover and how SBGN constructs can be used to represent biological graphs such as signalling pathways, metabolic networks, or gene regulatory networks. It will also introduce SBGN-ED, a tool which allows to create all three types of SBGN maps from scratch or edit existing maps, to validate these maps for syntactical and semantical correctness, to translate networks from the KEGG and MetaCrop databases in to SBGN and to export SBGN maps into several file and image formats. The tutorial will have the following structure: The History and aims of SBGN, SBGN Process Description Language, SBGN Entity Relationship Language, SBGN Activity Flow Language, Overview of tools supporting SBGN, SBGN-ED

Speakers info http://bic-gh.ipk-gatersleben.de/~schreibe/