MetaNetX

MetaNetX

Content
Description	Unified namespace for metabolites and biochemical reactions in the context of metabolic models
Data types captured	Small chemical compounds, biochemical reactions, cellular compartments, genome-scale metabolic models
Contact
Research center	SIB Swiss Institute of Bioinformatics Vital-IT group
Primary citation	PMID 33156326
Release date	June 2011
Access
Website	www.metanetx.org
Download URL	www.metanetx.org/mnxdoc/mnxref.html
Sparql endpoint	rdf.metanetx.org
Tools
Web	Import and map models MNXref ID mapper
Miscellaneous
License	CC BY 4.0
Version	4.4

MetaNetX is a database maintained by the SIB Swiss Institute of Bioinformatics for the automated model construction, and the genome annotation for large-scale metabolic networks. MetaNetX provides a number of tools to access, analyse and manipulate metabolic networks.^[1]

MetaNetX provides a bunch of pre-mapped metabolic models.

To ease model comparison, MetaNetX has developed a resource to unify metabolites and biochemical reactions in the context of metabolic models. This unified namespace is called MetaNetX/MNXref.^[2][3][4]

MNXref reconciles chemical compounds by structural similarity and biochemical reaction context. Then reconciles biochemical reactions on the basis of the chemical compound reconciliation in an iterative way. Each reconciled group of chemical compounds, biochemical reactions and cellular compartments is a bag of similar items. MNXref sets a referent for each group.

MetaNetX allows search in MNXref by chemical compounds, biochemical reactions and cellular compartments.

Currently, MetaNetX/MNXref reconciles those resources:

• BiGG
• ChEBI
• enviPath
• HMDB
• GO
• KEGG
• LipidMaps
• MetaCyc
• Reactome
• Rhea
• SABIO-RK
• SwissLipids
• The SEED