Human Endogenous Retrovirus database

Abbreviation:HERVd

General Information

This database is compiled from the human genome nucleotide sequences obtained mostly in the Human Genome Projects. The database makes it possible to continuously improve classification and characterization of retroviral families. The HERV database now contains retroviruses from more than 90 % of the human genome.

Homepage https://herv.img.cas.cz

Countries that developed this resource Czech Republic

Created in 2001

Taxonomic range

Homo sapiens

Knowledge Domains

Subjects

How to cite this record FAIRsharing.org: HERVd; Human Endogenous Retrovirus database; DOI: https://doi.org/10.25504/FAIRsharing.jm8fzm; Last edited: March 7, 2019, 10:27 a.m.; Last accessed: Apr 02 2020 11:08 a.m.

This record is maintained by hpaces ORCID and moravcik

Record updated: March 7, 2019, 10:27 a.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.jm8fzm' by 'The FAIRsharing Team' at 10:26, 07 Mar 2019 (approved):

	'licences' has been modified:
		Before:
			CC BY 4.0|https://creativecommons.org/licenses/by/4.0/|Software
		After:
			Creative Commons Attribution 4.0 International (CC BY 4.0)|https://creativecommons.org/licenses/by/4.0/|Data
		Added:
			Creative Commons Attribution 4.0 International (CC BY 4.0)|https://creativecommons.org/licenses/by/4.0/|Data
		Removed:
			CC BY 4.0|https://creativecommons.org/licenses/by/4.0/|Software

	'supportLinks' has been modified:
		Before:
			contact form|https://herv.img.cas.cz/about
			online documentation|https://herv.img.cas.cz/help
		After:
			contact form|https://herv.img.cas.cz/about
			help|https://herv.img.cas.cz/help
			online documentation|https://herv.img.cas.cz/stats
			online documentation|https://herv.img.cas.cz/about
		Added:
			help|https://herv.img.cas.cz/help
			online documentation|https://herv.img.cas.cz/stats
			online documentation|https://herv.img.cas.cz/about
		Removed:
			online documentation|https://herv.img.cas.cz/help

	'tools' has been modified:
		Before:
			Documentation||https://herv.img.cas.cz/help
			Statistics||https://herv.img.cas.cz/stats
			Selection pressures||https://herv.img.cas.cz/selection_pressures
		After:
			Selection pressures||https://herv.img.cas.cz/selection_pressures
		Added:
		Removed:
			Documentation||https://herv.img.cas.cz/help
			Statistics||https://herv.img.cas.cz/stats

	'dataProcesses' has been modified:
		Before:
			Entities
		After:
			Download Entities
			Browse repeats
			Browse Elements
			Browse Entities
		Added:
			Download Entities
			Browse repeats
			Browse Elements
			Browse Entities
		Removed:
			Entities

Edits to 'https://fairsharing.org/FAIRsharing.jm8fzm' by 'moravcik' at 08:52, 07 Mar 2019 (approved):

	'supportLinks' has been modified:
		Before:
			help|http://herv.img.cas.cz/help_search.html
		After:
			contact form|https://herv.img.cas.cz/about
			online documentation|https://herv.img.cas.cz/help
		Added:
			contact form|https://herv.img.cas.cz/about
			online documentation|https://herv.img.cas.cz/help
		Removed:
			help|http://herv.img.cas.cz/help_search.html

	'licences' has been modified:
		Before:
		After:
			CC BY 4.0|https://creativecommons.org/licenses/by/4.0/|Software
		Added:
			CC BY 4.0|https://creativecommons.org/licenses/by/4.0/|Software
		Removed:

	'tools' has been modified:
		Before:
			search||http://herv.img.cas.cz/cgi-bin/advanced_search.cgi
			search||http://herv.img.cas.cz/cgi-bin/advanced_search.cgi
		After:
			Documentation||https://herv.img.cas.cz/help
			Statistics||https://herv.img.cas.cz/stats
			Selection pressures||https://herv.img.cas.cz/selection_pressures
		Added:
			Documentation||https://herv.img.cas.cz/help
			Statistics||https://herv.img.cas.cz/stats
			Selection pressures||https://herv.img.cas.cz/selection_pressures
		Removed:
			search||http://herv.img.cas.cz/cgi-bin/advanced_search.cgi
			search||http://herv.img.cas.cz/cgi-bin/advanced_search.cgi

	'dataProcesses' has been modified:
		Before:
		After:
			Entities
		Added:
			Entities
		Removed:

	'miriam_id' has been modified:
		Before: None
		After: MIR:00000619

	'accessPoints' has been modified:
		Before:
		After:
			REST|https://herv.img.cas.cz/api/entities|All entities
			REST|https://herv.img.cas.cz/api/repeats|All repeats
			REST|https://herv.img.cas.cz/api/elements|All elements
			REST|https://herv.img.cas.cz/api/swagger|Swagger definition
		Added:
			REST|https://herv.img.cas.cz/api/entities|All entities
			REST|https://herv.img.cas.cz/api/repeats|All repeats
			REST|https://herv.img.cas.cz/api/elements|All elements
			REST|https://herv.img.cas.cz/api/swagger|Swagger definition
		Removed:

	'homepage' has been modified:
		Before: http://herv.img.cas.cz
		After: https://herv.img.cas.cz

Edits to 'https://fairsharing.org/FAIRsharing.jm8fzm' by 'The FAIRsharing Team' at 19:16, 26 Sep 2016 (approved):

	'year' has been modified:
		Before: None
		After: 2001 Domain list has changed:  Previous values: Classification|| DNA|material|http://purl.org/obo/owl/GO#GO_0005574 Genome|property|http://purl.org/obo/owl/SO#SO_0001026 New values:  Classification|| DNA|material|http://purl.org/obo/owl/GO#GO_0005574 Genome|property|http://purl.org/obo/owl/SO#SO_0001026 Life Science|domain| Biomedical Science|None|

Support

General

contact form	Contact
help	Help Pages
online documentation	Statistics
online documentation	About the database

Additional Information

Contact

Jan Pačes ORCID

Tools

Selection pressures

https://herv.img.cas.cz/selection_pressures

Access / Retrieve Data

Conditions of Use

Applies to: Data use

Creative Commons Attribution 4.0 International (CC BY 4.0)

Data Release

Download Entities

https://herv.img.cas.cz/entities.tar.gz

Data Access

Browse repeats	https://herv.img.cas.cz/repeats
Browse Elements	https://herv.img.cas.cz/elements
Browse Entities	https://herv.img.cas.cz/entities

REST Web Services

All entities	https://herv.img.cas.cz/api/entities
All repeats	https://herv.img.cas.cz/api/repeats
All elements	https://herv.img.cas.cz/api/elements
Swagger definition	https://herv.img.cas.cz/api/swagger

Publications

HERVd: database of human endogenous retroviruses.

Paces J., Pavlícek A., Paces V.,
Nucleic Acids Res. 2002

View Paper (PubMed)

HERVd: the Human Endogenous RetroViruses Database: update.

Paces J., Pavlícek A., Zika R., Kapitonov VV., Jurka J., Paces V.,
Nucleic Acids Res. 2004

View Paper (PubMed)

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

No semantic standards defined

Models and Formats

FASTA Sequence Format

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases

No related databases defined

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

This record is maintained by hpaces ORCID and moravcik

Maintains

Institute of Molecular Genetics, Academy of Sciences of the Czech Republic, Czech Republic (Research institute) Lead

Human Endogenous Retrovirus database

We need your help!

Developed by

Contact Us

About FAIRsharing