standards > model/format > DOI:10.25504/FAIRsharing.z9kvry
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ready Systems Biology Graphical Notation

Abbreviation: SBGN


General Information
The Systems Biology Graphical Notation (SBGN) project is an effort to standardize the graphical notation used in maps of biological processes. The mission of SBGN project is to develop high quality, standard graphical languages for representing biological processes and interactions. Each SBGN language is based on the consensus of the broad international SBGN community of biologists, curators and software developers.



How to cite this record FAIRsharing.org: SBGN; Systems Biology Graphical Notation; DOI: https://doi.org/10.25504/FAIRsharing.z9kvry; Last edited: June 23, 2021, 1:09 p.m.; Last accessed: Dec 06 2021 8:36 p.m.


This record is maintained by matthiaskoenig  ORCID

Record updated: June 23, 2021, 11:58 a.m. by The FAIRsharing Team.

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Publications

Systems Biology Graphical Notation: Entity Relationship language Level 1 Version 2.

Sorokin A,Le Novere N,Luna A,Czauderna T,Demir E,Haw R,Mi H,Moodie S,Schreiber F,Villeger A
J Integr Bioinform 2015

View Paper (PubMed) View Publication

The Systems Biology Graphical Notation.

Le Novere N et al.
Nat Biotechnol 2009

View Paper (PubMed) View Publication

Systems Biology Graphical Notation: Activity Flow language Level 1 Version 1.2.

Mi H,Schreiber F,Moodie S,Czauderna T,Demir E,Haw R,Luna A,Le Novere N,Sorokin A,Villeger A
J Integr Bioinform 2015

View Paper (PubMed) View Publication

gammaCaMKII shuttles Ca(2)(+)/CaM to the nucleus to trigger CREB phosphorylation and gene expression.

Ma H,Groth RD,Cohen SM,Emery JF,Li B,Hoedt E,Zhang G,Neubert TA,Tsien RW
Cell 2014

View Paper (PubMed) View Publication

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Reactome - a curated knowledgebase of biological pathways
The cornerstone of Reactome is a freely available, open source relational database of signaling and metabolic molecules and their relations organized into biological pathways and processes. The core unit of the Reactome data model is the reaction. Entities (nucleic acids, proteins, complexes, vaccines, anti-cancer therapeutics and small molecules) participating in reactions form a network of biological interactions and are grouped into pathways. Examples of biological pathways in Reactome include classical intermediary metabolism, signaling, transcriptional regulation, apoptosis and disease. Inferred orthologous reactions are available for 15 non-human species including mouse, rat, chicken, zebrafish, worm, fly, and yeast.

Pathway Commons
Pathway Commons is a convenient point of access to biological pathway information collected from public pathway databases. Information is sourced from public pathway databases and is readily searched, visualized, and downloaded. The data is freely available under the license terms of each contributing database.

Protein ANalysis THrough Evolutionary Relationships: Classification of Genes and Proteins
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PathBank
PathBank is an interactive, visual database containing more than 100 000 machine-readable pathways found in model organisms such as humans, mice, E. coli, yeast, and Arabidopsis thaliana. The majority of these pathways are not found in any other pathway database. PathBank is designed specifically to support pathway elucidation and pathway discovery in metabolomics, transcriptomics, proteomics, and systems biology. All PathBank pathways include information on the relevant organelles, subcellular compartments, protein complex cofactors, protein complex locations, metabolite locations, chemical structures, and protein complex quaternary structures. The database is easily browsed and supports full text, sequence, and chemical structure searching.

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