MetaboLights

Abbreviation:MTBLS

Recommended

General Information

MetaboLights is a database is a collection of metabolite structures. This resource provides information on the compound origins,the biological roles, locations and concentrations, as well as experimental data from metabolic experiments. The tools and capabilities of this database is firmly routed in collaborative working worldwie with the metabolomics community such as the Metabolomics Society and the associated Metabolomics Standards Initiative (MSI).

Homepage https://www.ebi.ac.uk/metabolights/

Developed in Belgium , European Union , France , Germany , United Kingdom , United States

Created in 2012

Taxonomic range

All

Knowledge Domains BETA

Subjects BETA

User-defined Tags

Fluxomics

In the following recommendations:

How to cite this record FAIRsharing.org: MTBLS; MetaboLights; DOI: https://doi.org/10.25504/FAIRsharing.kkdpxe; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Feb 19 2019 8:19 a.m.

Publication for citation MetaboLights--an open-access general-purpose repository for metabolomics studies and associated meta-data. Haug K., Salek RM., Conesa P., Hastings J., de Matos P., Rijnbeek M., Mahendraker T., Williams M., Neumann S., Rocca-Serra P., Maguire E., González-Beltrán A., Sansone SA., Griffin JL., Steinbeck C., ; Nucleic Acids Res. ; 2013.

This record is maintained by khaug ORCID

Record updated: Aug. 2, 2018, 10:11 p.m. by khaug.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.kkdpxe' by 'khaug' at 22:11, 02 Aug 2018 (approved):

	'organizations' has been modified:
		Before:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			Cambridge Systems Biology Centre, University of Cambridge, Cambridge, United Kingdom|http://www.sysbiol.cam.ac.uk|Maintains
			European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, United Kingdom|https://www.ebi.ac.uk/|Maintains
			Medical Research Council (MRC), London, United Kingdom|http://www.mrc.ac.uk|Funds
			US National Institutes of Health (NIH)|https://www.nih.gov/|Funds
			European Commission Horizon2020 Programme|https://ec.europa.eu/programmes/horizon2020/|Funds
		After:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			Medical Research Council (MRC), London, United Kingdom|http://www.mrc.ac.uk|Funds
			US National Institutes of Health (NIH)|https://www.nih.gov/|Funds
			European Commission Horizon2020 Programme|https://ec.europa.eu/programmes/horizon2020/|Funds
			Cambridge Systems Biology Centre, University of Cambridge, Cambridge, United Kingdom|http://www.sysbiol.cam.ac.uk|Maintains
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, United Kingdom|https://www.ebi.ac.uk/|Maintains
		Added:
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, United Kingdom|https://www.ebi.ac.uk/|Maintains
		Removed:
			European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, United Kingdom|https://www.ebi.ac.uk/|Maintains

Edits to 'https://fairsharing.org/FAIRsharing.kkdpxe' by 'The FAIRsharing Team' at 21:54, 02 Aug 2018 (approved):

	'organizations' has been modified:
		Before:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|http://www.bbsrc.ac.uk/|Funds
			Cambridge Systems Biology Centre, University of Cambridge, Cambridge, United Kingdom|http://www.sysbiol.cam.ac.uk|Maintains
		After:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			Cambridge Systems Biology Centre, University of Cambridge, Cambridge, United Kingdom|http://www.sysbiol.cam.ac.uk|Maintains
			European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, United Kingdom|https://www.ebi.ac.uk/|Maintains
			Medical Research Council (MRC), London, United Kingdom|http://www.mrc.ac.uk|Funds
			US National Institutes of Health (NIH)|https://www.nih.gov/|Funds
			European Commission Horizon2020 Programme|https://ec.europa.eu/programmes/horizon2020/|Funds
		Added:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, United Kingdom|https://www.ebi.ac.uk/|Maintains
			Medical Research Council (MRC), London, United Kingdom|http://www.mrc.ac.uk|Funds
			US National Institutes of Health (NIH)|https://www.nih.gov/|Funds
			European Commission Horizon2020 Programme|https://ec.europa.eu/programmes/horizon2020/|Funds
		Removed:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|http://www.bbsrc.ac.uk/|Funds

	'standardsImplemented' has been modified:
		Before:
			Chemical Entities of Biological Interest
			HUPO PSI Mass Spectrometry Controlled Vocabulary
			Investigation Study Assay Tabular
			Nuclear Magnetic Resonance Controlled Vocabulary
			Core Information for Metabolomics Reporting
			OmicsDI XML format
			Nuclear Magnetic Resonance Markup Language
		After:
			Chemical Entities of Biological Interest
			BRENDA tissue / enzyme source
			HUPO PSI Mass Spectrometry Controlled Vocabulary
			Investigation Study Assay Tabular
			Nuclear Magnetic Resonance Controlled Vocabulary
			Core Information for Metabolomics Reporting
			OmicsDI XML format
			Nuclear Magnetic Resonance Markup Language
		Added:
			BRENDA tissue / enzyme source
		Removed:

	'related_databases' has been modified:
		Before:
			Rhea
			WikiPathways
			Omics Discovery Index
		After:
			Rhea
			WikiPathways
			BRENDA
			Omics Discovery Index
		Added:
			BRENDA
		Removed:

	'description' has been modified:
		Before: MetaboLights is a database for Metabolomics experiments and derived information. The database is cross-species, cross-technique and covers metabolite structures and their reference spectra as well as their biological roles, locations and concentrations, and experimental data from metabolic experiments. We offer user-submission tools and have strong reporting capabilities. We will utilise and further develop de-facto standard formats where various components are encapsulated, such as the encoded spectral and chromatographic data, and associated information about the chemical structure, as well as metadata describing assays and the study as a whole. We are dedicated to collaborate closely with major parties in world-wide metabolomics communities, such as the Metabolomics Society and the associated Metabolomics Standards Initiative (MSI).
		After: MetaboLights is a database is a collection of metabolite structures. This resource provides information on the compound origins,the  biological roles, locations and concentrations, as well as experimental data from metabolic experiments. The tools and capabilities of this database is firmly routed in collaborative working worldwie with the metabolomics community such as the Metabolomics Society and the associated Metabolomics Standards Initiative (MSI).

	'countries' has been modified:
		Before:
			European Union
			United Kingdom
		After:
			Belgium
			European Union
			France
			Germany
			United Kingdom
			United States
		Added:
			Belgium
			France
			Germany
			United States
		Removed:

	'licences' has been modified:
		Before:
		After:
			EBI Terms of Use|http://www.ebi.ac.uk/about/terms-of-use|Data
			Apache License 2.0|http://www.apache.org/licenses/LICENSE-2.0|Data
		Added:
			EBI Terms of Use|http://www.ebi.ac.uk/about/terms-of-use|Data
			Apache License 2.0|http://www.apache.org/licenses/LICENSE-2.0|Data
		Removed:

	'grants' has been modified:
		Before:
			BB/I000933/1
			BB/L024152/1
		After:
			1U54GM114833-01
			634402
			654241
			BB/M027635/1
			MR/L01632X/1
		Added:
			1U54GM114833-01
			634402
			654241
			BB/M027635/1
			MR/L01632X/1
		Removed:
			BB/I000933/1
			BB/L024152/1

	'publications' has been modified:
		Before:
			MetaboLights--an open-access general-purpose repository for metabolomics studies and associated meta-data.|Haug K., Salek RM., Conesa P., Hastings J., de Matos P., Rijnbeek M., Mahendraker T., Williams M., Neumann S., Rocca-Serra P., Maguire E., Gonzlez-Beltrn A., Sansone SA., Griffin JL., Steinbeck C., |Nucleic Acids Res.|2013
			The MetaboLights repository: curation challenges in metabolomics|Reza M. Salek, Kenneth Haug, Pablo Conesa, Janna Hastings, Mark Williams, Tejasvi Mahendraker, Eamonn Maguire, Alejandra N. Gonzlez-Beltrn, Philippe Rocca-Serra, Susanna-Assunta Sansone and Christoph Steinbeck| Database: The Journal of Biological Databases and Curation|2013
			MetaboLights: towards a new COSMOS of metabolomics data management.|Steinbeck C, Conesa P, Haug K, Mahendraker T, Williams M, Maguire E, Rocca-Serra P, Sansone SA, Salek RM, Griffin JL.|Metabolomics|2013
			Dissemination of metabolomics results: role of MetaboLights and COSMOS.|Salek RM, Haug K, Steinbeck C|GigaScience |2013
		After:
			MetaboLights--an open-access general-purpose repository for metabolomics studies and associated meta-data.|Haug K., Salek RM., Conesa P., Hastings J., de Matos P., Rijnbeek M., Mahendraker T., Williams M., Neumann S., Rocca-Serra P., Maguire E., Gonzlez-Beltrn A., Sansone SA., Griffin JL., Steinbeck C., |Nucleic Acids Res.|2013
			The MetaboLights repository: curation challenges in metabolomics|Reza M. Salek, Kenneth Haug, Pablo Conesa, Janna Hastings, Mark Williams, Tejasvi Mahendraker, Eamonn Maguire, Alejandra N. Gonzlez-Beltrn, Philippe Rocca-Serra, Susanna-Assunta Sansone and Christoph Steinbeck| Database: The Journal of Biological Databases and Curation|2013
			MetaboLights: towards a new COSMOS of metabolomics data management.|Steinbeck C, Conesa P, Haug K, Mahendraker T, Williams M, Maguire E, Rocca-Serra P, Sansone SA, Salek RM, Griffin JL.|Metabolomics|2013
			Dissemination of metabolomics results: role of MetaboLights and COSMOS.|Salek RM, Haug K, Steinbeck C|GigaScience |2013
			MetaboLights: An Open-Access Database Repository for Metabolomics Data.|Kale NS,Haug K,Conesa P,Jayseelan K,Moreno P,Rocca-Serra P,Nainala VC,Spicer RA,Williams M,Li X,Salek RM,Griffin JL,Steinbeck C|Curr Protoc Bioinformatics|2016
			Automated assembly of species metabolomes through data submission into a public repository.|Salek RM,Conesa P,Cochrane K,Haug K,Williams M,Kale N,Moreno P,Jayaseelan KV,Macias JR,Nainala VC,Hall RD,Reed LK,Viant MR,O'Donovan C,Steinbeck C|Gigascience|2017
		Added:
			MetaboLights: An Open-Access Database Repository for Metabolomics Data.|Kale NS,Haug K,Conesa P,Jayseelan K,Moreno P,Rocca-Serra P,Nainala VC,Spicer RA,Williams M,Li X,Salek RM,Griffin JL,Steinbeck C|Curr Protoc Bioinformatics|2016
			Automated assembly of species metabolomes through data submission into a public repository.|Salek RM,Conesa P,Cochrane K,Haug K,Williams M,Kale N,Moreno P,Jayaseelan KV,Macias JR,Nainala VC,Hall RD,Reed LK,Viant MR,O'Donovan C,Steinbeck C|Gigascience|2017
		Removed:

	'tools' has been modified:
		Before:
			ISAcreator-MetaboLights Bundle|1.7|ftp://ftp.ebi.ac.uk/pub/databases/metabolights/submissionTool/ISAcreatorMetaboLights.zip
		After:
			ISAcreator-MetaboLights Bundle|1.7|ftp://ftp.ebi.ac.uk/pub/databases/metabolights/submissionTool/ISAcreatorMetaboLights.zip
			PhenoMeNal||http://phenomenal-h2020.eu/home/
		Added:
			PhenoMeNal||http://phenomenal-h2020.eu/home/
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.kkdpxe' by 'khaug' at 17:09, 12 Mar 2018 (approved):

	'homepage' has been modified:
		Before: http://www.ebi.ac.uk/metabolights/
		After: https://www.ebi.ac.uk/metabolights/

Edits to 'https://fairsharing.org/FAIRsharing.kkdpxe' by 'khaug' at 11:06, 12 Mar 2018 (approved):

	'contactName' has been modified:
		Before:
			Reza Salek
		After:
			Claire O'Donovan
		Added:
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.kkdpxe' by 'The FAIRsharing Team' at 15:21, 12 Feb 2018 (approved):

	'supportLinks' has been modified:
		Before:
			http://www.ebi.ac.uk/metabolights/help
			http://tess-elixir.csc.fi/dataset/european-bioinformatics-institute-ebi-metabolights_quick_tour
			@MetaboLights
		After:
			http://www.ebi.ac.uk/metabolights/help
			https://tess.elixir-europe.org/materials/metabolights-quick-tour
			@MetaboLights
		Added:
			https://tess.elixir-europe.org/materials/metabolights-quick-tour
		Removed:
			http://tess-elixir.csc.fi/dataset/european-bioinformatics-institute-ebi-metabolights_quick_tour

Edits to 'https://fairsharing.org/FAIRsharing.kkdpxe' by 'The FAIRsharing Team' at 12:05, 12 Feb 2018 (approved):

	'supportLinks' has been modified:
		Before:
			https://tess.elixir-europe.org/materials/metabolights-quick-tour
			http://www.ebi.ac.uk/metabolights/help
			http://tess-elixir.csc.fi/dataset/european-bioinformatics-institute-ebi-metabolights_quick_tour
			@MetaboLights
		After:
			http://www.ebi.ac.uk/metabolights/help
			http://tess-elixir.csc.fi/dataset/european-bioinformatics-institute-ebi-metabolights_quick_tour
			@MetaboLights
		Added:
		Removed:
			https://tess.elixir-europe.org/materials/metabolights-quick-tour

In Collections

Metabolomics Standards and Databases

Data Citation Implementation

H2020 Phenome and Metabolome aNalysis (PhenoMenal) Project

ELIXIR Core Data and Data Deposition Resources

Support

General

support email	MetaboLights helpdesk
online documentation	http://www.ebi.ac.uk/metabolights/help
twitter	@MetaboLights

Additional Information

Contact	Claire O'Donovan ORCID
Identifiers.org	MIR:00000380

TeSS training resources

MetaboLights: Quick tour

Tools

ISAcreator-MetaboLights Bundle	ftp://ftp.ebi.ac.uk/pub/databases/metabolights/submissionTool/ISAcreat ...	1.7
PhenoMeNal	http://phenomenal-h2020.eu/home/

Access / Retrieve Data

Conditions of Use

Applies to: Data use

Data Versioning

internal versioning for curation

No link recorded

Data Access

Continuous release (live database)	https://www.ebi.ac.uk/metabolights/studies
Continuous release (metadata sharing)	http://www.metabolomexchange.org/site/#/search/mtbls
Continuous release (metadata sharing)	https://www.omicsdi.org/search?q=(:%20AND%20(repository:%20(%22Metab ...
ftp	ftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/
web interface	http://www.ebi.ac.uk/metabolights/index

Publications

MetaboLights--an open-access general-purpose repository for metabolomics studies and associated meta-data.

Haug K., Salek RM., Conesa P., Hastings J., de Matos P., Rijnbeek M., Mahendraker T., Williams M., Neumann S., Rocca-Serra P., Maguire E., González-Beltrán A., Sansone SA., Griffin JL., Steinbeck C.,
Nucleic Acids Res. 2013

View Paper (PubMed)

The MetaboLights repository: curation challenges in metabolomics

Reza M. Salek, Kenneth Haug, Pablo Conesa, Janna Hastings, Mark Williams, Tejasvi Mahendraker, Eamonn Maguire, Alejandra N. González-Beltrán, Philippe Rocca-Serra, Susanna-Assunta Sansone and Christoph Steinbeck
Database: The Journal of Biological Databases and Curation 2013

View Publication

MetaboLights: towards a new COSMOS of metabolomics data management.

Steinbeck C, Conesa P, Haug K, Mahendraker T, Williams M, Maguire E, Rocca-Serra P, Sansone SA, Salek RM, Griffin JL.
Metabolomics 2013

View Publication

Dissemination of metabolomics results: role of MetaboLights and COSMOS.

Salek RM, Haug K, Steinbeck C
GigaScience 2013

View Publication

MetaboLights: An Open-Access Database Repository for Metabolomics Data.

Kale NS,Haug K,Conesa P,Jayseelan K,Moreno P,Rocca-Serra P,Nainala VC,Spicer RA,Williams M,Li X,Salek RM,Griffin JL,Steinbeck C
Curr Protoc Bioinformatics 2016

View Paper (PubMed) View Publication

Automated assembly of species metabolomes through data submission into a public repository.

Salek RM,Conesa P,Cochrane K,Haug K,Williams M,Kale N,Moreno P,Jayaseelan KV,Macias JR,Nainala VC,Hall RD,Reed LK,Viant MR,O'Donovan C,Steinbeck C
Gigascience 2017

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

Core Information for Metabolomics Reporting

Terminology Artifacts

Models and Formats

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases

Implementing Policies

Credit

Record Maintainer

This record is maintained by khaug ORCID

Funds

Biotechnology and Biological Sciences Research Council (BBSRC), UK (Government body)
European Commission Horizon2020 Programme (Government body)
Medical Research Council (MRC), London, UK (Government body)
National Institutes of Health (NIH), Bethesda, MD, USA (Government body)

Maintains

Cambridge Systems Biology Centre, University of Cambridge, Cambridge, UK (University)
European Molecular Biology Laboratory (EMBL), Heidelberg, Germany (Research institute)

Grant Number(s)

1U54GM114833-01 (National Institutes of Health (NIH), Bethesda, MD, USA)
634402 (European Commission Horizon2020 Programme)
654241 (European Commission Horizon2020 Programme)
BB/M027635/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)
MR/L01632X/1 (Medical Research Council (MRC), London, UK)

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