Genome Properties

General Information

Genome properties is an annotation system whereby functional attributes can be assigned to a genome, based on the presence of a defined set of protein signatures within that genome. This is a reimplementation at EMBL-EBI of a resource previously hosted at JCVI.

Homepage https://www.ebi.ac.uk/interpro/genomeproperties

Countries that developed this resource Austria , Belgium , Croatia , Czech Republic , Denmark , Finland , France , Germany , Greece , Hungary , Iceland , Israel , Italy , Lithuania , Luxembourg , Malta , Montenegro , Netherlands , Norway , Portugal , Republic of Ireland , Slovakia , Spain , Sweden , Switzerland , United Kingdom , United States

Created in 2005

Taxonomic range

All

Knowledge Domains

Subjects

User-defined Tags

protein homology

proteome annotation

How to cite this record FAIRsharing.org: Genome Properties; Genome Properties; DOI: https://doi.org/10.25504/FAIRsharing.A0ozDj; Last edited: Feb. 4, 2021, 2:47 p.m.; Last accessed: May 07 2021 4:23 a.m.

Publication for citation Genome properties in 2019: a new companion database to InterPro for the inference of complete functional attributes. Richardson LJ,Rawlings ND,Salazar GA,Almeida A,Haft DR,Ducq G,Sutton GG,Finn RD; Nucleic Acids Res ; 2018; 10.1093/nar/gky1013;

This record is maintained by GenProp

Record added: Oct. 30, 2018, 2:18 p.m.
Record updated: Feb. 4, 2021, 1:31 p.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.A0ozDj' by 'The FAIRsharing Team' at 13:31, 04 Feb 2021 (approved):

	'onto_domains' has been modified:
		Before:
			Genome annotation
			Pathway or network prediction
			Sequence annotation
			genome
			homologous
			protein-containing complex
			proteome
		After:
			Function analysis
			Gene functional annotation
			Genome annotation
			Prediction and recognition
			Sequence annotation
			genome
			homologous
			protein-containing complex
			proteome
		Added:
			Function analysis
			Gene functional annotation
			Prediction and recognition
		Removed:
			Pathway or network prediction

Edits to 'https://fairsharing.org/FAIRsharing.A0ozDj' by 'The FAIRsharing Team' at 20:55, 11 Feb 2020 (approved):

	'organizations' has been modified:
		Before:
			European Molecular Biology Laboratory (EMBL), Heidelberg, Germany|http://www.embl.org|Maintains
		After:
			National Science Foundation (NSF), USA|https://www.nsf.gov/|Funds
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
			European Molecular Biology Laboratory (EMBL), Heidelberg, Germany|http://www.embl.org|Funds
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
		Added:
			National Science Foundation (NSF), USA|https://www.nsf.gov/|Funds
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
			European Molecular Biology Laboratory (EMBL), Heidelberg, Germany|http://www.embl.org|Funds
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
		Removed:
			European Molecular Biology Laboratory (EMBL), Heidelberg, Germany|http://www.embl.org|Maintains

	'countries' has been modified:
		Before:
			European Union
			United Kingdom
			United States
		After:
			Austria
			Belgium
			Croatia
			Czech Republic
			Denmark
			Finland
			France
			Germany
			Greece
			Hungary
			Iceland
			Israel
			Italy
			Lithuania
			Luxembourg
			Malta
			Montenegro
			Netherlands
			Norway
			Portugal
			Republic of Ireland
			Slovakia
			Spain
			Sweden
			Switzerland
			United Kingdom
			United States
		Added:
			Austria
			Belgium
			Croatia
			Czech Republic
			Denmark
			Finland
			France
			Germany
			Greece
			Hungary
			Iceland
			Israel
			Italy
			Lithuania
			Luxembourg
			Malta
			Montenegro
			Netherlands
			Norway
			Portugal
			Republic of Ireland
			Slovakia
			Spain
			Sweden
			Switzerland
		Removed:
			European Union

	'onto_disciplines' has been modified:
		Before:
		After:
			Functional Genomics
		Added:
			Functional Genomics
		Removed:

	'onto_domains' has been modified:
		Before:
			Genome annotation
			Pathway or network prediction
			Sequence annotation
			homologous
			protein-containing complex
			proteome
		After:
			Genome annotation
			Pathway or network prediction
			Sequence annotation
			genome
			homologous
			protein-containing complex
			proteome
		Added:
			genome
		Removed:

	'grants' has been modified:
		Before:
		After:
			1458808
		Added:
			1458808
		Removed:

	'tools' has been modified:
		Before:
			InterProScan||https://www.ebi.ac.uk/interpro/interproscan.html
		After:
		Added:
		Removed:
			InterProScan||https://www.ebi.ac.uk/interpro/interproscan.html

Edits to 'https://fairsharing.org/FAIRsharing.A0ozDj' by 'The FAIRsharing Team' at 13:34, 06 Nov 2018 (approved):

	'shortname' has been modified:
		Before:  
		After: Genome Properties

Edits to 'https://fairsharing.org/FAIRsharing.A0ozDj' by 'The FAIRsharing Team' at 13:11, 06 Nov 2018 (approved):

	'domains' has been modified:
		Before:
			Genome annotation
			Pathway or network prediction
			Proteome
			Sequence annotation
			protein complex
			protein homology
			proteome annotation
		After:
			Genome annotation
			Homologous
			Pathway or network prediction
			Proteome
			Sequence annotation
			protein complex
			protein homology
			proteome annotation
		Added:
			Homologous
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.A0ozDj' by 'The FAIRsharing Team' at 13:03, 06 Nov 2018 (approved):

	'domains' has been modified:
		Before:
			Genome annotation
			Pathway or network prediction
			protein complex
			protein homology
			proteome annotation
		After:
			Genome annotation
			Pathway or network prediction
			Proteome
			Sequence annotation
			protein complex
			protein homology
			proteome annotation
		Added:
			Proteome
			Sequence annotation
		Removed:

	'licences' has been modified:
		Before:
		After:
			EBI Terms of Use|http://www.ebi.ac.uk/about/terms-of-use|Data
		Added:
			EBI Terms of Use|http://www.ebi.ac.uk/about/terms-of-use|Data
		Removed:

	'supportLinks' has been modified:
		Before:
			email|GenProp@ebi.ac.uk
			training|https://www.ebi.ac.uk/training/online/course/genome-properties-quick-tour
			training|https://www.ebi.ac.uk/training/online/course/genome-properties-tutorial
		After:
			email|GenProp@ebi.ac.uk
			online documentation|https://www.ebi.ac.uk/interpro/genomeproperties/#about
			training|https://www.ebi.ac.uk/training/online/course/genome-properties-quick-tour
			training|https://www.ebi.ac.uk/training/online/course/genome-properties-tutorial
		Added:
			online documentation|https://www.ebi.ac.uk/interpro/genomeproperties/#about
		Removed:

	'dataProcesses' has been modified:
		Before:
		After:
			Browse Repository
			Repository Viewer
		Added:
			Browse Repository
			Repository Viewer
		Removed:

	'organizations' has been modified:
		Before:
		After:
			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:

In Collections

RDA Covid-19 WG Resources

Support

General

support email	Genome properties helpdesk
online documentation	About Genome properties
training	Genome properties quick tour
training	Genome properties tutorial

Additional Information

Contact

Lorna Richardson ORCID

Tools

No tools defined

Access / Retrieve Data

Conditions of Use

Applies to: Data use

EMBL-EBI Terms of Use

Data Access

Browse Repository	https://www.ebi.ac.uk/interpro/genomeproperties/#hierarchy
Repository Viewer	https://www.ebi.ac.uk/interpro/genomeproperties/#viewer

Publications

Genome properties in 2019: a new companion database to InterPro for the inference of complete functional attributes.

Richardson LJ,Rawlings ND,Salazar GA,Almeida A,Haft DR,Ducq G,Sutton GG,Finn RD
Nucleic Acids Res 2018

View Paper (PubMed) View Publication

Genome Properties: a system for the investigation of prokaryotic genetic content for microbiology, genome annotation and comparative genomics.

Haft DH,Selengut JD,Brinkac LM,Zafar N,White O
Bioinformatics 2004

View Paper (PubMed) View Publication

TIGRFAMs and Genome Properties: tools for the assignment of molecular function and biological process in prokaryotic genomes.

Selengut JD,Haft DH,Davidsen T,Ganapathy A,Gwinn-Giglio M,Nelson WC,Richter AR,White O
Nucleic Acids Res 2006

View Paper (PubMed) View Publication

TIGRFAMs and Genome Properties in 2013.

Haft DH,Selengut JD,Richter RA,Harkins D,Basu MK,Beck E
Nucleic Acids Res 2012

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

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 GenProp

Funds

National Science Foundation (NSF), USA (Government body)
Biotechnology and Biological Sciences Research Council (BBSRC), UK (Government body)
European Molecular Biology Laboratory (EMBL), Heidelberg, Germany (Research institute)

Maintains

European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK (Research institute) Lead

Grant Number(s)

1458808 (National Science Foundation (NSF), USA)

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