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ProteomeXchange

Recommended

General Information

The ProteomeXchange consortium has been set up to provide a single point of submission of MS proteomics data to the main existing proteomics repositories, and to encourage the data exchange between them for optimal data dissemination.

Homepage http://www.proteomexchange.org/

Countries that developed this resource European Union

Created in 2005

Taxonomic range

All

Knowledge Domains

Subjects

In the following recommendations:

How to cite this record FAIRsharing.org: ProteomeXchange; ProteomeXchange; DOI: https://doi.org/10.25504/FAIRsharing.92dt9d; Last edited: March 9, 2021, 4:14 p.m.; Last accessed: Sep 16 2021 9:42 p.m.

Publication for citation The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition. Deutsch EW,Csordas A,Sun Z,Jarnuczak A,Perez-Riverol Y,Ternent T,Campbell DS,Bernal-Llinares M,Okuda S,Kawano S,Moritz RL,Carver JJ,Wang M,Ishihama Y,Bandeira N,Hermjakob H,Vizcaino JA; Nucleic Acids Res ; 2016; 10.1093/nar/gkw936;

This record is maintained by javizca ORCID

Record updated: March 5, 2021, 10:03 a.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.92dt9d' by 'The FAIRsharing Team' at 10:03, 05 Mar 2021 (approved):

	'organizations' has been modified:
		Before:
			EU FP7 Collaborative Project|http://cordis.europa.eu/fp7calls/home_en.html|Funds
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
			Institute for Systems Biology (ISB), Seattle, WA, USA|https://www.systemsbiology.org|Maintains
			University of California San Diego, CA, USA|http://ucsd.edu/|Maintains
			National Center for Protein Sciences, Beijing, China|http://www.phoenix-center.cn/en|Maintains
			University of Washington, USA|https://www.washington.edu/|Maintains
		After:
			National Center for Protein Sciences, Beijing, China|http://www.phoenix-center.cn/en|Maintains
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
			Institute for Systems Biology (ISB), Seattle, WA, USA|https://www.systemsbiology.org|Maintains
			University of California San Diego, CA, USA|http://ucsd.edu/|Maintains
			University of Washington, USA|https://www.washington.edu/|Maintains
			EU FP7 Collaborative Project|http://cordis.europa.eu/fp7calls/home_en.html|Funds
			UK-Japan collaboration|https://www.gov.uk/world/organisations/uk-science-innovation-network-in-japan|Funds
			The Wellcome Trust, UK|https://wellcome.ac.uk/|Funds
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			National Institute of General Medical Sciences (NIGMS), Bethesda, MD, USA|http://www.nigms.nih.gov|Funds
			 National Institute of Biomedical Imaging and Bioengineering (NIBIB), Bethesda, MD, USA|https://www.nibib.nih.gov/|Funds
		Added:
			UK-Japan collaboration|https://www.gov.uk/world/organisations/uk-science-innovation-network-in-japan|Funds
			The Wellcome Trust, UK|https://wellcome.ac.uk/|Funds
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			National Institute of General Medical Sciences (NIGMS), Bethesda, MD, USA|http://www.nigms.nih.gov|Funds
			 National Institute of Biomedical Imaging and Bioengineering (NIBIB), Bethesda, MD, USA|https://www.nibib.nih.gov/|Funds
		Removed:

	'grants' has been modified:
		Before:
			'ProteomeXchange' grant 260558
		After:
			'ProteomeXchange' grant 260558
			2P50 GM076547/Center for Systems Biology
			BB/I00095X/1
			BB/K01997X/1
			BB/L024225/1
			BB/N022440/1
			R01GM087221
			U54EB020406
			WT101477MA
		Added:
			2P50 GM076547/Center for Systems Biology
			BB/I00095X/1
			BB/K01997X/1
			BB/L024225/1
			BB/N022440/1
			R01GM087221
			U54EB020406
			WT101477MA
		Removed:

	'supportLinks' has been modified:
		Before:
			FAQ|http://www.proteomexchange.org/faq
			TeSS training|https://tess.elixir-europe.org/materials/pride-and-proteomexchange-webinar
			online documentation|http://www.proteomexchange.org/docs/guidelines_px.pdf
			online documentation|http://www.proteomexchange.org/pxcollaborativeagreement.pdf
			rss|https://groups.google.com/forum/feed/proteomexchange/msgs/rss_v2_0.xml
			twitter|@ProteomeXchange
		After:
			TeSS training|https://tess.elixir-europe.org/materials/pride-and-proteomexchange-webinar
			online documentation|http://www.proteomexchange.org/docs/guidelines_px.pdf
			online documentation|http://www.proteomexchange.org/pxcollaborativeagreement.pdf
			rss|https://groups.google.com/forum/feed/proteomexchange/msgs/rss_v2_0.xml
			twitter|@ProteomeXchange
		Added:
		Removed:
			FAQ|http://www.proteomexchange.org/faq

	'dataProcesses' has been modified:
		Before:
			Submit, data curation, http://www.proteomexchange.org/submission/index.html
			Browse, data access, http://proteomecentral.proteomexchange.org/cgi/GetDataset
		After:
			Submit, data curation, http://www.proteomexchange.org/submission/index.html
			Browse and search, data access, http://proteomecentral.proteomexchange.org/cgi/GetDataset
		Added:
			Browse and search, data access, http://proteomecentral.proteomexchange.org/cgi/GetDataset
		Removed:
			Browse, data access, http://proteomecentral.proteomexchange.org/cgi/GetDataset

	'onto_domains' has been modified:
		Before:
		After:
			Peptide identification
			interactome
		Added:
			Peptide identification
			interactome
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.92dt9d' by 'The FAIRsharing Team' at 13:10, 14 Jan 2019 (approved):

	'organizations' has been modified:
		Before:
			EU FP7 Collaborative Project|http://cordis.europa.eu/fp7calls/home_en.html|Funds
			Swiss Institute of Bioinformatics (SIB), Switzerland|https://www.sib.swiss|Maintains
		After:
			EU FP7 Collaborative Project|http://cordis.europa.eu/fp7calls/home_en.html|Funds
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
			Institute for Systems Biology (ISB), Seattle, WA, USA|https://www.systemsbiology.org|Maintains
			University of California San Diego, CA, USA|http://ucsd.edu/|Maintains
			National Center for Protein Sciences, Beijing, China|http://www.phoenix-center.cn/en|Maintains
			University of Washington, USA|https://www.washington.edu/|Maintains
		Added:
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
			Institute for Systems Biology (ISB), Seattle, WA, USA|https://www.systemsbiology.org|Maintains
			University of California San Diego, CA, USA|http://ucsd.edu/|Maintains
			National Center for Protein Sciences, Beijing, China|http://www.phoenix-center.cn/en|Maintains
			University of Washington, USA|https://www.washington.edu/|Maintains
		Removed:
			Swiss Institute of Bioinformatics (SIB), Switzerland|https://www.sib.swiss|Maintains

	'supportLinks' has been modified:
		Before:
			FAQ|http://www.proteomexchange.org/faq
			TeSS training|https://tess.elixir-europe.org/materials/pride-and-proteomexchange-webinar
			online documentation|http://www.proteomexchange.org/documentation
		After:
			FAQ|http://www.proteomexchange.org/faq
			TeSS training|https://tess.elixir-europe.org/materials/pride-and-proteomexchange-webinar
			online documentation|http://www.proteomexchange.org/docs/guidelines_px.pdf
			online documentation|http://www.proteomexchange.org/pxcollaborativeagreement.pdf
			rss|https://groups.google.com/forum/feed/proteomexchange/msgs/rss_v2_0.xml
			twitter|@ProteomeXchange
		Added:
			online documentation|http://www.proteomexchange.org/docs/guidelines_px.pdf
			online documentation|http://www.proteomexchange.org/pxcollaborativeagreement.pdf
			rss|https://groups.google.com/forum/feed/proteomexchange/msgs/rss_v2_0.xml
			twitter|@ProteomeXchange
		Removed:
			online documentation|http://www.proteomexchange.org/documentation

	'publications' has been modified:
		Before:
			ProteomeXchange provides globally coordinated proteomics data submission and dissemination|Vizcaino, J. et al|Nature Biotechnology|2014
		After:
			ProteomeXchange provides globally coordinated proteomics data submission and dissemination|Vizcaino, J. et al|Nature Biotechnology|2014
			The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition.|Deutsch EW,Csordas A,Sun Z,Jarnuczak A,Perez-Riverol Y,Ternent T,Campbell DS,Bernal-Llinares M,Okuda S,Kawano S,Moritz RL,Carver JJ,Wang M,Ishihama Y,Bandeira N,Hermjakob H,Vizcaino JA|Nucleic Acids Res|2016
		Added:
			The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition.|Deutsch EW,Csordas A,Sun Z,Jarnuczak A,Perez-Riverol Y,Ternent T,Campbell DS,Bernal-Llinares M,Okuda S,Kawano S,Moritz RL,Carver JJ,Wang M,Ishihama Y,Bandeira N,Hermjakob H,Vizcaino JA|Nucleic Acids Res|2016
		Removed:

	'dataProcesses' has been modified:
		Before:
			Submit
			Browse
			search
		After:
			Submit
			Browse
		Added:
		Removed:
			search

In Collections

Data Citation Implementation

Support

General

online documentation	Data Submission Guidelines
online documentation	Collaborative Agreement
rss	RSS Feed
twitter	@ProteomeXchange

Additional Information

Contact

Henning Hermjakob ORCID

TeSS training resources

Pride and proteomexchange webinar

Tools

No tools defined

Access / Retrieve Data

Conditions of Use

Applies to: Data use

Data Curation

Submit

http://www.proteomexchange.org/submission/index.html

Data Access

Browse and search

http://proteomecentral.proteomexchange.org/cgi/GetDataset

Publications

ProteomeXchange provides globally coordinated proteomics data submission and dissemination

Vizcaino, J. et al
Nature Biotechnology 2014

View Paper (PubMed) View Publication

The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition.

Deutsch EW,Csordas A,Sun Z,Jarnuczak A,Perez-Riverol Y,Ternent T,Campbell DS,Bernal-Llinares M,Okuda S,Kawano S,Moritz RL,Carver JJ,Wang M,Ishihama Y,Bandeira N,Hermjakob H,Vizcaino JA
Nucleic Acids Res 2016

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

Terminology Artifacts

No semantic standards defined

Models and Formats

PRIDE XML Format

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases

Implementing Policies

Credit

Record Maintainer

This record is maintained by javizca ORCID

Funds

EU FP7 Collaborative Project (Government body)
UK-Japan collaboration
The Wellcome Trust, UK (Charitable foundation)
Biotechnology and Biological Sciences Research Council (BBSRC), UK (Government body)
National Institute of General Medical Sciences (NIGMS), Bethesda, MD, USA (Government body)
National Institute of Biomedical Imaging and Bioengineering (NIBIB), Bethesda, MD, USA

Maintains

National Center for Protein Sciences, Beijing, China (Research institute)
European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK (Research institute)
Institute for Systems Biology (ISB), Seattle, WA, USA (Research institute)
University of California San Diego, CA, USA (University)
University of Washington, USA (University)

Grant Number(s)

'ProteomeXchange' grant 260558 (EU FP7 Collaborative Project)
2P50 GM076547/Center for Systems Biology (National Institute of General Medical Sciences (NIGMS), Bethesda, MD, USA)
BB/I00095X/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)
BB/K01997X/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)
BB/L024225/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)
BB/N022440/1 (UK-Japan collaboration)
R01GM087221 (National Institute of General Medical Sciences (NIGMS), Bethesda, MD, USA)
U54EB020406 ( National Institute of Biomedical Imaging and Bioengineering (NIBIB), Bethesda, MD, USA)
WT101477MA (The Wellcome Trust, UK)

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