Ensembl Genomes

General Information

The Ensembl genome annotation system, developed jointly by the EBI and the Wellcome Trust Sanger Institute, has been used for the annotation, analysis and display of vertebrate genomes since 2000. Since 2009, the Ensembl site has been complemented by the creation of five new sites, for bacteria, protists, fungi, plants and invertebrate metazoa, enabling users to use a single collection of (interactive and programatic) interfaces for accessing and comparing genome-scale data from species of scientific interest from across the taxonomy.

Homepage http://ensemblgenomes.org/

Countries that developed this resource European Union , United Kingdom

Created in 2008

Taxonomic range

Knowledge Domains

Subjects

How to cite this record FAIRsharing.org: Ensembl Genomes; Ensembl Genomes; DOI: https://doi.org/10.25504/FAIRsharing.923a0p; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Oct 20 2019 11:12 p.m.

This record is maintained by pkersey

Record added: March 13, 2017, 2:17 p.m.
Record updated: Jan. 8, 2019, 9:57 a.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.923a0p' by 'The FAIRsharing Team' at 09:57, 08 Jan 2019 (approved):

	'organizations' has been modified:
		Before:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			European Commission FP7|https://ec.europa.eu/research/fp7/index_en.cfm|Funds
			U.S. National Science Foundation|http://www.nsf.gov|Funds
			Bill and Melinda Gates Foundation, Seattle, Washington, USA|http://www.gatesfoundation.org|Funds
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Funds
			The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK|http://www.sanger.ac.uk|Funds
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
		After:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			European Commission FP7|https://ec.europa.eu/research/fp7/index_en.cfm|Funds
			U.S. National Science Foundation|http://www.nsf.gov|Funds
			Bill and Melinda Gates Foundation, Seattle, Washington, USA|http://www.gatesfoundation.org|Funds
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Funds
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
			The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK|http://www.sanger.ac.uk|Maintains,Funds
		Added:
			The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK|http://www.sanger.ac.uk|Maintains,Funds
		Removed:
			The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK|http://www.sanger.ac.uk|Funds

Edits to 'https://fairsharing.org/FAIRsharing.923a0p' by 'The FAIRsharing Team' at 13:59, 21 Dec 2018 (approved):

	'organizations' has been modified:
		Before:
			The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK|http://www.sanger.ac.uk|Funds
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			European Commission FP7|https://ec.europa.eu/research/fp7/index_en.cfm|Funds
			U.S. National Science Foundation|http://www.nsf.gov|Funds
			Bill and Melinda Gates Foundation, Seattle, Washington, USA|http://www.gatesfoundation.org|Funds
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Undefined
		After:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			European Commission FP7|https://ec.europa.eu/research/fp7/index_en.cfm|Funds
			U.S. National Science Foundation|http://www.nsf.gov|Funds
			Bill and Melinda Gates Foundation, Seattle, Washington, USA|http://www.gatesfoundation.org|Funds
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Funds
			The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK|http://www.sanger.ac.uk|Funds
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
		Added:
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Funds
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
		Removed:
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Undefined

	'miriam_id' has been modified:
		Before: None
		After: 

	'dataProcesses' has been modified:
		Before:
			browse
			download
			Data release
			MySQL database access
		After:
			browse
			download
			MySQL database access
		Added:
		Removed:
			Data release

Edits to 'https://fairsharing.org/FAIRsharing.923a0p' by 'The FAIRsharing Team' at 10:49, 21 Nov 2018 (approved):

	'domains' has been modified:
		Before:
			Comparative genomics
			Genome annotation
			Life Science
		After:
			Comparative genomics
			DNA sequence data
			Genome annotation
			Life Science
		Added:
			DNA sequence data
		Removed:

	'miriam_id' has been modified:
		Before: 
		After: None

Edits to 'https://fairsharing.org/FAIRsharing.923a0p' by 'The FAIRsharing Team' at 13:43, 06 Aug 2018 (approved):

	'related_databases' has been modified:
		Before:
			Pathogen Host Interactions
			Gramene, a comparative mapping resource for grains
			European Nucleotide Archive
			Ensembl
			UniProt Knowledgebase
			Ensembl Bacteria
			Ensembl Protists
			Ensembl Plants
			Ensembl Fungi
			Ensembl Metazoa
			BCL-2 Database
			Alternaria Genomes Database
		After:
			TarBase
			Pathogen Host Interactions
			Gramene, a comparative mapping resource for grains
			European Nucleotide Archive
			Ensembl
			UniProt Knowledgebase
			Ensembl Bacteria
			Ensembl Protists
			Ensembl Plants
			Ensembl Fungi
			Ensembl Metazoa
			BCL-2 Database
			Alternaria Genomes Database
		Added:
			TarBase
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.923a0p' by 'The FAIRsharing Team' at 13:42, 06 Aug 2018 (approved):

	'related_databases' has been modified:
		Before:
			Gramene, a comparative mapping resource for grains
			European Nucleotide Archive
			Ensembl
			UniProt Knowledgebase
			Ensembl Bacteria
			Ensembl Protists
			Ensembl Plants
			Ensembl Fungi
			Ensembl Metazoa
			BCL-2 Database
			Alternaria Genomes Database
		After:
			Pathogen Host Interactions
			Gramene, a comparative mapping resource for grains
			European Nucleotide Archive
			Ensembl
			UniProt Knowledgebase
			Ensembl Bacteria
			Ensembl Protists
			Ensembl Plants
			Ensembl Fungi
			Ensembl Metazoa
			BCL-2 Database
			Alternaria Genomes Database
		Added:
			Pathogen Host Interactions
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.923a0p' by 'The FAIRsharing Team' at 11:17, 06 Aug 2018 (approved):

	'organizations' has been modified:
		Before:
			Bill and Melinda Gates Foundation, Seattle, Washington, United States|http://www.gatesfoundation.org|Maintains
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Undefined
			European Commission FP7|https://ec.europa.eu/research/fp7/index_en.cfm|Funds
			The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK.|http://www.sanger.ac.uk|Maintains
			U.S. National Science Foundation|http://www.nsf.gov|Funds
		After:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			European Commission FP7|https://ec.europa.eu/research/fp7/index_en.cfm|Funds
			U.S. National Science Foundation|http://www.nsf.gov|Funds
			Bill and Melinda Gates Foundation, Seattle, Washington, United States|http://www.gatesfoundation.org|Funds
			The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK.|http://www.sanger.ac.uk|Funds
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Undefined
		Added:
			Bill and Melinda Gates Foundation, Seattle, Washington, United States|http://www.gatesfoundation.org|Funds
			The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK.|http://www.sanger.ac.uk|Funds
		Removed:
			Bill and Melinda Gates Foundation, Seattle, Washington, United States|http://www.gatesfoundation.org|Maintains
			The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK.|http://www.sanger.ac.uk|Maintains

	'related_databases' has been modified:
		Before:
			European Nucleotide Archive
			Ensembl
			UniProt Knowledgebase
			Ensembl Bacteria
			Ensembl Protists
			Ensembl Plants
			Ensembl Fungi
			Ensembl Metazoa
			BCL-2 Database
		After:
			Gramene, a comparative mapping resource for grains
			European Nucleotide Archive
			Ensembl
			UniProt Knowledgebase
			Ensembl Bacteria
			Ensembl Protists
			Ensembl Plants
			Ensembl Fungi
			Ensembl Metazoa
			BCL-2 Database
		Added:
			Gramene, a comparative mapping resource for grains
		Removed:

	'miriam_id' has been modified:
		Before: None
		After:

Edits to 'https://fairsharing.org/FAIRsharing.923a0p' by 'The FAIRsharing Team' at 15:07, 18 Mar 2017 (approved):

	'description' has been modified:
		Before: The Ensembl genome annotation system, developed jointly by the EBI and the Wellcome Trust Sanger Institute, has been used for the annotation, analysis and display of vertebrate genomes since 2000.
		After: The Ensembl genome annotation system, developed jointly by the EBI and the Wellcome Trust Sanger Institute, has been used for the annotation, analysis and display of vertebrate genomes since 2000. Since 2009, the Ensembl site has been complemented by the creation of five new sites, for bacteria, protists, fungi, plants and invertebrate metazoa, enabling users to use a single collection of (interactive and programatic) interfaces for accessing and comparing genome-scale data from species of scientific interest from across the taxonomy. Domain list has changed:  Previous values: Annotation|property| Genome|property|http://purl.org/obo/owl/SO#SO_0001026 Life Science|domain| New values:  Life Science|domain| Genome annotation|| Genome sequence|| Comparative genomics|process| Countries have changed:  Previous values: United Kingdom New values:  United Kingdom European Union Support links have changed:  Previous values: http://ensemblgenomes.org/info/faqs helpdesk@ensemblgenomes.org New values:  http://ensemblgenomes.org/info/faqs helpdesk@ensemblgenomes.org @ensemblgenomes http://www.ensembl.info/ http://ensemblgenomes.org/info Licenses have changed:  Previous values: New values:  Terms and Condition of use Related databases have changed:  Previous values: biodbcore-000310: European Nucleotide Archive biodbcore-000330: Ensembl biodbcore-000544: UniProt Knowledgebase biodbcore-000884: Ensembl Bacteria New values:  biodbcore-000310: European Nucleotide Archive biodbcore-000330: Ensembl biodbcore-000544: UniProt Knowledgebase

Edits to 'https://fairsharing.org/FAIRsharing.923a0p' by 'The FAIRsharing Team' at 15:38, 17 Mar 2017 (approved):

	'contactName' has been modified:
		Before:
			
		After:
			Paul Julian Kersey
		Added:
		Removed:

In Collections

ELIXIR Core Data Resources and Deposition Databases

Support

General

FAQ	FAQ
blog	Ensembl Blog
support email	Ensembl Genomes Helpdesk
online documentation	Ensembl Genomes Documentation
twitter	@ensemblgenomes

Additional Information

Contact

Paul Julian Kersey

Tools

BioMart

http://ensemblgenomes.org/info/access/biomart

Access / Retrieve Data

Conditions of Use

Applies to: Data use

EBI Terms of Use

Data Access

browse	http://ensemblgenomes.org/info/genomes
download	http://ensemblgenomes.org/info/access/ftp
MySQL database access	http://ensemblgenomes.org/info/access/mysql

REST Web Services

REST service

http://ensemblgenomes.org/info/access/rest

Other Web Services

Ensembl Perl API

http://ensemblgenomes.org/info/access/api

Publications

Ensembl Genomes 2016: more genomes, more complexity.

Kersey PJ,Allen JE,Armean I,Boddu S,Bolt BJ,Carvalho-Silva D,Christensen M,Davis P,Falin LJ,Grabmueller C,Humphrey J,Kerhornou A,Khobova J,Aranganathan NK,Langridge N,Lowy E,McDowall MD,Maheswari U,Nuhn M,Ong CK,Overduin B,Paulini M,Pedro H,Perry E,Spudich G,Tapanari E,Walts B,Williams G,Tello-Ruiz M,Stein J,Wei S,Ware D,Bolser DM,Howe KL,Kulesha E,Lawson D,Maslen G,Staines DM
Nucleic Acids Res 2015

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

NCBI Taxonomy

Models and Formats

No syntax standards defined

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

This record is maintained by pkersey

Funds

Biotechnology and Biological Sciences Research Council (BBSRC), UK (Government body)
European Commission FP7 (Government body)
U.S. National Science Foundation (Government body)
Bill and Melinda Gates Foundation, Seattle, Washington, USA (Charitable foundation)
European Commission under FP7 Grant Agreement (Government body)
The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK (Research institute)

Maintains

European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK (Research institute) Lead
The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK (Research institute)

Grant Number(s)

090548/B/09/Z (The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK)
222886-2, Microme (European Commission FP7)
228421, INFRAVEC (European Commission FP7)
284496, transPLANT (European Commission FP7)
41686 IPGA Gramene (U.S. National Science Foundation)
42660, AllBio (European Commission FP7)
BB/F19793/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)
BB/H531519/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)
BB/I008071/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)
BB/J00328X/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)
BB/J017299/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)
BB/KK020102/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)
BB/M018458/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)
OPPGD1491 (Bill and Melinda Gates Foundation, Seattle, Washington, USA)

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