Table 1. Glossary of acronyms
AcronymDescriptionLink
Array Ex.Array Express—archive of functional genomics data https://www.ebi.ac.uk/arrayexpress/
BioModelsDatabase for storing curated and non‐curated systems biology computational models https://www.ebi.ac.uk/biomodels/
CellMLStandard for formatting models, as well as a model repository https://www.cellml.org/
ChEBIChemical Entities of Biological Interest—a dictionary of molecular entities https://www.ebi.ac.uk/chebi/init.do
COMBINEComputational Modelling in Biology Network http://co.mbine.org
ENAEuropean Nucleotide Archive—a comprehensive record of nucleotide sequences http://www.ebi.ac.uk/ena
FAIRDOMFindable Accessible Interoperable Reusable Data standard Operating Procedures and Models http://fair-dom.org
FASTAText‐based format for representing nucleotide sequences https://en.wikipedia.org/wiki/FASTA_format
GEOGene Expression Omnibus—repository for functional genomics data http://www.ncbi.nlm.nih.gov/geo/
GOGene Ontology—a controlled vocabulary of gene and gene product attributes http://geneontology.org/
ISBEInfrastructure for Systems Biology Europe http://project.isbe.eu
ISOInternational Standards Organization http://www.iso.org
JWS OnlineTool for online simulation of systems biology models http://jjj.mib.ac.uk/
KISAOKinetic Simulation Algorithm Ontology, for identifying algorithms and associated set‐up of simulations http://co.mbine.org/standards/kisao
MIAMEMinimum Information about a Microarray Experiment http://fged.org/projects/miame/
MIASEMinimum Information about a Simulation Experiment http://co.mbine.org/standards/miase
MIRIAMMinimum Information Required in the Annotation of Models http://co.mbine.org/standards/miriam
SBGNSystems Biology Graphical Notation http://www.sbgn.org/
SBMLSystems Biology Mark‐up Language http://sbml.org/
SEEKBespoke systems biology data management platform, which works as an aggregated content commons, and a database http://fair-dom.org/SEEK