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Table 1 Standards for systems biology, grouped by type

From: Trends in modeling Biomedical Complex Systems

Minimum Information (see also the MIBBI initiative [58])
MIAME Microarray Experiment http://www.mged.org/Workgroups/MIAME/miame_2.0.html
MIAPE Proteomics Experiment http://www.psidev.info/
MIRIAM Annotation of biochemical Models http://biomodels.net/miriam/
MIACA Cellular Assay (MIACA) http://miaca.sourceforge.net/
Ontologies (see also the OBO Foundry [43])
GO Gene Ontology http://www.geneontology.org/
MO Microarray Ontology http://mged.sourceforge.net/ontologies/MGEDontology.php
PW Pathway ontology http://rgd.mcw.edu/tools/ontology/ont_search.cgi
PSI-MI Protein-protein interaction http://www.psidev.info/
SBO Systems Biology http://www.ebi.ac.uk/sbo/
FuGO Functional Genomics Investigation http://fugo.sourceforge.net/ontologyInfo/ontology.php
XML Languages
MAGE-ML Microarray Gene Expression ML http://www.mged.org/Workgroups/MAGE/mage-ml.html
HUP-ML Human Proteome ML http://www1.biz.biglobe.ne.jp/~jhupo/HUP-ML/hup-ml.html
mzXML Mass spectrometry data ML http://sashimi.sourceforge.net/software.html
SBML Systems Biology ML http://www.sbml.org/Documents/
CSML Cell System ML http://csml.org/
CellML Cell ML http://www.cellml.org/about/about
BioPAX Biological Pathways Exchange http://www.biopax.org/