Metabolomics Standards and Databases

The Metabolomics Standards and Databases collection in FAIRsharing lists the standards and databases relevant to the metabolomics field, as identified in the article "Data standards can boost metabolomics research, and if there is a will, there is a way", Metabolomics, January 2016, 12:14.

This record is maintained by: agbeltran ORCID

Record updated: July 7, 2017, 1:44 p.m. by The FAIRsharing Team.

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Edits to 'https://fairsharing.org/bsg-c000006' by 'The FAIRsharing Team' at 15:20, 01 Aug 2016 (approved):

	'home_url' has been modified:
		Before: http://dx.doi.org/10.1007/s11306-015-0879-3
		After: http://dx.doi.org/10.1007/s11306-015-0879-3 Taxonomy list has changed:  Previous values: New values:  All|http://identifiers.org/taxonomy/1?resource=MIR:00100019

Edits to 'https://fairsharing.org/bsg-c000006' by 'The FAIRsharing Team' at 13:44, 07 Jul 2017 (approved):

	'description' has been modified:
		Before: The Metabolomics Standards and Databases collection in FAIRsharing lists the standards and databases relevant to the metabolomics field, as identified in the article "Data standards can boost metabolomics research, and if there is a will, there is a way", Metabolomics, January 2016, 12:14.
		After: The Metabolomics Standards and Databases collection in FAIRsharing lists the standards and databases relevant to the metabolomics field, as identified in the article "Data standards can boost metabolomics research, and if there is a will, there is a way", Metabolomics, January 2016, 12:14.

15 records in view

Name	Abbreviation	Type	Subject	Domain	Taxonomy	Related Database	Related Standard	Related Policy	In Collection/Recommendation
Core Information for Metabolomics Reporting	CIMR	Standard	Life Sciences Metabolomics	Centrally registered identifier Chemical entity Metabolite	All	Plantmetabolomics.org MTBLS	nmrCV NMR-ML ISA-Tab	None	Metabolomics Standards and Databases H2020 Phenome and Metabolome aNalysis (PhenoMenal) Project FAIRDOM Community Standards Minimum Information for Biological and Biomedical Investigations Chemistry
eXtensible Experiment Markup Language	XEML	Standard	Life Sciences Metabolomics	Experiment metadata	All	GMD	XML	None	Metabolomics Standards and Databases
imaging mz Markup Language	imzML	Standard	Life Sciences	Image Imaging Mass spectrometry assay Tissue	All	None	PSI SpML XML MIAPE-MSI MIAPE mzML	None	Metabolomics Standards and Databases H2020 Phenome and Metabolome aNalysis (PhenoMenal) Project
Investigation Study Assay Tabular	ISA-Tab	Standard	Functional Genomics Life Sciences	Biological sample DNA microarray Experiment metadata Gene expression data Report Plus 3 more...	All	SCDE MTBLS GMD GigaDB SCC Plus 7 more...	OBI CIMR MINSEQE MIAME MIQE Plus 5 more...	EMBO Recommended Databases and Data Standards GigaScience - Minimum Standards of Reporting Checklist BioMed Central - Minimum Standards of Reporting Checklist	Metabolomics Standards and Databases H2020 Phenome and Metabolome aNalysis (PhenoMenal) Project bioCADDIE eTRIKS Standards Starter Pack FAIRDOM Community Standards Plus 1 more...
IUPAC International Chemical Identifier	InChI	Standard	Cheminformatics Chemistry Knowledge And Information Systems	Chemical structure Molecular structure Centrally registered identifier Chemical descriptor Chemical entity Plus 1 more...	Not applicable	CCD ChemSpider ExplorEnz SwissLipids MNXref Plus 1 more...	AnIML	Cell Press - Trends In Biochemical Sciences - Instructions for Authors	Metabolomics Standards and Databases H2020 Phenome and Metabolome aNalysis (PhenoMenal) Project Chemistry
Joint Committee on Atomic and Molecular Physical data - working group on Data eXchange	JCAMP-DX	Standard	Chemistry	Mass spectrometry spectra Infared spectroscopy Spectroscopy	All	ChemSpider	AnIML	None	Metabolomics Standards and Databases H2020 Phenome and Metabolome aNalysis (PhenoMenal) Project Chemistry
MetaboLights	MTBLS	Database	Life Sciences Metabolomics	Mass spectrometry spectra Lipid Metabolite Nuclear Magnetic Resonance (NMR) spectroscopy Publication	All	Rhea WikiPathways BRENDA OmicsDI	CHEBI BTO PSI-MS CV nmrCV ISA-Tab Plus 3 more...	GigaScience - Minimum Standards of Reporting Checklist EMBO Recommended Databases and Data Standards Gates Open Research Data Guidelines BioMed Central - Minimum Standards of Reporting Checklist F1000Research Data Policy Plus 16 more...	Metabolomics Standards and Databases Data Citation Implementation H2020 Phenome and Metabolome aNalysis (PhenoMenal) Project ELIXIR node contributed resources
Metabolomics Workbench	MW	Database	Life Sciences Metabolomics	None	All	OmicsDI	OmicsDI XML format mwTab	PLOS Recommended Repositories	Metabolomics Standards and Databases Open Science Prize H2020 Phenome and Metabolome aNalysis (PhenoMenal) Project
mz5	mz5	Standard	Life Sciences Ontology and Terminology	Mass spectrometry assay	All	None	HDF5 mzML	None	Metabolomics Standards and Databases H2020 Phenome and Metabolome aNalysis (PhenoMenal) Project
~~mzData~~	~~mzData~~	Standard	Life Sciences Proteomics	Mass spectrometry spectra	Not applicable	None	mzML	None	Metabolomics Standards and Databases HUPO Proteomics Standards Initiative
mz Markup Language	mzML	Standard	Life Sciences	Mass spectrometry spectra Centrally registered identifier Mass spectrometry assay Protein	All	MOPED MitoZoa PRIDE PeptideAtlas World-2DPAGE Plus 2 more...	mzQuantML PSI SpML imzML MIAPE mz5 Plus 7 more...	EMBO Recommended Databases and Data Standards	Metabolomics Standards and Databases H2020 Phenome and Metabolome aNalysis (PhenoMenal) Project eTRIKS Standards Starter Pack FAIRDOM Community Standards HUPO Proteomics Standards Initiative
~~mzXML~~	~~mzXML~~	Standard	Life Sciences Proteomics	Mass spectrometry spectra	Not applicable	MassIVE	mzML	None	Metabolomics Standards and Databases
Nuclear Magnetic Resonance Controlled Vocabulary	nmrCV	Standard	Chemistry Metabolomics	Chemical structure Molecular structure Assay Chemical screen Metabolite Plus 1 more...	None	MTBLS HMDB BMRB OBO	CIMR NMR-ML	None	Metabolomics Standards and Databases OBO Foundry H2020 Phenome and Metabolome aNalysis (PhenoMenal) Project Chemistry
Nuclear Magnetic Resonance Markup Language	NMR-ML	Standard	Life Sciences Metabolomics	Chemical structure Omics data analysis Chemical entity Metabolite Nuclear Magnetic Resonance (NMR) spectroscopy	None	MTBLS GMD HMDB BMRB	nmrCV CIMR XML	None	Metabolomics Standards and Databases H2020 Phenome and Metabolome aNalysis (PhenoMenal) Project eTRIKS Standards Starter Pack Chemistry
Simplified Molecular Input Line Entry Specification Format	SMILES	Standard	Chemistry Life Sciences	Molecular structure Molecular entity	All	BitterDB Nematode.net CCD enviPath SwissLipids Plus 3 more...	None	None	Metabolomics Standards and Databases H2020 Phenome and Metabolome aNalysis (PhenoMenal) Project

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