Repository details

MetaCyc

Name of repository
MetaCyc
Additional name(s)
  • Metabolic Pathway Database
  • a member of the BioCyc database collection
Repository URL
https://metacyc.org/
Subject(s)
Description
MetaCyc is a curated database of experimentally elucidated metabolic pathways from all domains of life. MetaCyc contains pathways involved in both primary and secondary metabolism, as well as associated metabolites, reactions, enzymes, and genes. The goal of MetaCyc is to catalog the universe of metabolism by storing a representative sample of each experimentally elucidated pathway. MetaCyc applications include: Online encyclopedia of metabolism, Prediction of metabolic pathways in sequenced genomes, Support metabolic engineering via enzyme database, Metabolite database aids. metabolomics research.
Contact
Content type(s)
Keyword(s)
Persistent identifier(s) of the repository
  • RRID:SCR_007778
  • RRID:nif-0000-03114
  • OMICS_02718
  • FAIRsharing_doi:10.25504/FAIRsharing.yytevr
Repository size
2.722 pathways; 3009 different organisms
Repository type(s)
  • disciplinary
Research data repository language(s)
  • English
Data and/or service provider
  • data provider
Institution name
National Institutes of Health, National Institute of General Medical Sciences
Additional name(s)
  • NIH NIGMS
Identifier(s)
  • ROR:04q48ey07
Country
United States
Type(s) of responsibility
  • funding
Type of institution
non-profit
Institution name
SRI International
Identifier(s)
  • ROR:05s570m15
Contact(s)
Country
United States
Type(s) of responsibility
  • general
Type of institution
non-profit

Policies (2)

Policy Name
BioCycUserGuide
Policy Name
Curator Guide for Pathway / Genome Databases

Database access

Type of access to research data repository
open

Database licenses (1)

Database License
other

Data access (1)

Type of access to data
open

Data licenses (1)

DataLicense
other

Data upload (1)

Type of data upload
closed
Persistent identifier system(s)
  • none
Name of the repository software
  • other
Data citation guideline
https://metacyc.org/
Enhanced Publication
yes
Quality management
yes

Application programming interfaces (1)

API type
REST

Alerting services (1)

Type of alerting service
RSS

Remarks

Remarks
MetaCyc is covered by Thomson Reuters Data Citation Index. MetaCyc contains links to many other bioinformatics DBs: Pathways link to EcoCyc, the University of Minnesota Biocatalysis/Biodegradation Database, the KEGG Ligand database, and the Soybase database. Proteins contain unification links to UniProt/Swiss-Prot, FlyBase, DictyBase, DIP, DisProt, STRING, EuPathDB, PhosphoSite, PRIDE, PROSITE, SMR, and MINT. Proteins also contain relationship links to SMART, PANTHER, ProDom, PRINTS, CAZy, PDB, Pfam, and InterPro. Reactions link to ENZYME, KEGG, BRENDA, Rhea, and IUBMB. Chemical compounds link to PubChem, NCI Open Database, ChEBI, KEGG, Chemical Abstracts, Wikipedia ChemSpider, DrugBank, BiGG and KEGG Glycan. Genes link to NCBI Entrez nucleotide and gene databases, to TAIR (The Arabidopsis Information Resource) and to the Coli Genetic Stock Center. All types of objects may contain literature citations, which link to PubMed when available.
Entry date
2014-11-25
Last update
2021-10-11
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Cite this re3data.org record:

re3data.org: MetaCyc; editing status 2021-10-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R32K7X last accessed: 2024-04-25