title: Creating interactive, web-based and data-enriched maps with the Systems Biology Graphical Notation.
abstract: The Systems Biology Graphical Notation (SBGN) is an emerging standard for the uniform representation of biological processes and networks. By using examples from gene regulation and metabolism, this protocol shows the construction of SBGN maps by either manual drawing or automatic translation using the tool SBGN-ED. In addition, it discusses the enrichment of SBGN maps with different kinds of -omics data to bring numerical data into the context of these networks in order to facilitate the interpretation of experimental data. Finally, the export of such maps to public websites, including clickable images, supports the communication of results within the scientific community. With regard to the described functionalities, other tools partially overlap with SBGN-ED. However, currently, SBGN-ED is the only tool that combines all of these functions, including the representation in SBGN, data mapping and website export. This protocol aims to assist scientists with the step-by-step procedure, which altogether takes ∼90 min.
authors.affiliation: Leibniz Institute of Plant Genetics and Crop Plant Research Gatersleben (IPK), Gatersleben, Germany. junkera@ipk-gatersleben.de
authors.forename: Astrid
authors.initials: A
authors.lastname: Junker
authors.forename: Hendrik
authors.initials: H
authors.lastname: Rohn
authors.forename: Tobias
authors.initials: T
authors.lastname: Czauderna
authors.forename: Christian
authors.initials: C
authors.lastname: Klukas
authors.forename: Anja
authors.initials: A
authors.lastname: Hartmann
authors.forename: Falk
authors.initials: F
authors.lastname: Schreiber
mesh_terms: D003196:Computer Graphics; D053263:Gene Regulatory Networks; D033181:Information Dissemination; D020407:Internet; D053858:Metabolic Networks and Pathways; D012984:Software; D049490:Systems Biology / Q000379:methods*