MetaNetX/MNXref: unified namespace for metabolites and biochemical reactions in the context of metabolic models | Zendy

Sébastien Moretti | Zendy; Van Du T. Tran | Zendy; Florence Mehl | Zendy; Mark Ibberson | Zendy; Marco Pagni | Zendy

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MetaNetX/MNXref: unified namespace for metabolites and biochemical reactions in the context of metabolic models

Author(s) -

Sébastien Moretti,

Van Du T. Tran,

Florence Mehl,

Mark Ibberson,

Marco Pagni

Publication year - 2020

Publication title -

nucleic acids research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.008

H-Index - 537

eISSN - 1362-4954

pISSN - 0305-1048

DOI - 10.1093/nar/gkaa992

Subject(s) - namespace , sparql , biology , rdf , context (archaeology) , metabolic network , resource (disambiguation) , world wide web , flat file database , computational biology , computer science , database , semantic web , computer file , paleontology , computer network , unix file types , stub file

MetaNetX/MNXref is a reconciliation of metabolites and biochemical reactions providing cross-links between major public biochemistry and Genome-Scale Metabolic Network (GSMN) databases. The new release brings several improvements with respect to the quality of the reconciliation, with particular attention dedicated to preserving the intrinsic properties of GSMN models. The MetaNetX website (https://www.metanetx.org/) provides access to the full database and online services. A major improvement is for mapping of user-provided GSMNs to MXNref, which now provides diagnostic messages about model content. In addition to the website and flat files, the resource can now be accessed through a SPARQL endpoint (https://rdf.metanetx.org).

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