Genome Variation Format

Abbreviation: GVF

General Information

The Genome Variation Format (GVF) is a very simple file format for describing sequence alteration features at nucleotide resolution relative to a reference genome.

Homepage https://github.com/The-Sequence-Ontology/Specifications/blob/master/gvf.md

Countries that developed this resource United States

Created in 2009

Taxonomic range

All

Knowledge Domains

Subjects

How to cite this record FAIRsharing.org: GVF; Genome Variation Format; DOI: https://doi.org/10.25504/FAIRsharing.pkw5bj; Last edited: July 16, 2019, 3:49 p.m.; Last accessed: Feb 18 2020 4:22 p.m.

This record is maintained by keilbeck

Record updated: July 16, 2019, 3:48 p.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.pkw5bj' by 'The FAIRsharing Team' at 15:48, 16 Jul 2019 (approved):

	'onto_domains' has been modified:
		Before:
			DNA sequence
			Genetic Polymorphism
			genome
			variant
		After:
			DNA sequence
			Genetic Polymorphism
			Nucleic acid sequence
			genome
			variant
		Added:
			Nucleic acid sequence
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.pkw5bj' by 'The FAIRsharing Team' at 21:32, 26 Jun 2019 (approved):

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

	'countries' has been modified:
		Before:
		After:
			United States
		Added:
			United States
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.pkw5bj' by 'The FAIRsharing Team' at 11:34, 21 Nov 2018 (approved):

	'domains' has been modified:
		Before:
			DNA sequence data
			Genetic polymorphism
			Life Science
			Variant
		After:
			DNA sequence data
			Genetic polymorphism
			Genome
			Life Science
			Sequence variant
		Added:
			Genome
			Sequence variant
		Removed:
			Variant

Edits to 'https://fairsharing.org/FAIRsharing.pkw5bj' by 'The FAIRsharing Team' at 10:48, 21 Nov 2018 (approved):

	'domains' has been modified:
		Before:
			Genetic polymorphism
			Life Science
			Variant
		After:
			DNA sequence data
			Genetic polymorphism
			Life Science
			Variant
		Added:
			DNA sequence data
		Removed:

	'description' has been modified:
		Before: The Genome Variation Format (GVF) is a very simple file format for describing sequence alteration features at nucleotide resolution relative to a reference genome. 
		After: The Genome Variation Format (GVF) is a very simple file format for describing sequence alteration features at nucleotide resolution relative to a reference genome.

Edits to 'https://fairsharing.org/FAIRsharing.pkw5bj' by 'The FAIRsharing Team' at 10:06, 25 Nov 2016 (approved):

	'homepage' has been modified:
		Before: http://www.sequenceontology.org/resources/gvf.html
		After: https://github.com/The-Sequence-Ontology/Specifications/blob/master/gvf.md Related standards have changed:  Previous values: New values:  bsg-s000089: Gene Ontology Domain list has changed:  Previous values: Genome sequence|| Genome variation|process| Variant file|| New values:  Genome sequence|| Genome variation|process| Variant file|| Life Science|domain| Taxonomy list has changed:  Previous values: New values:  All|http://identifiers.org/taxonomy/1?resource=MIR:00100019 Organisations have changed:  Previous values: US National Institutes of Health (NIH) New values:  US National Institutes of Health (NIH) Sequence Ontology Administrators Grants have changed:  Previous values: New values:  R44HG2991 R44HG3667

Support

No support information provided.

Additional Information

Contact

Karen Eilbeck

Tools

No tools defined

Schemas

No XSD schemas defined

Access / Retrieve Data

Conditions of Use

Publications

A standard variation file format for human genome sequences

Reese MG, Moore B, Batchelor C, Salas F, Cunningham F, Marth GT, Stein L, Flicek P, Yandell M, Eilbeck K.
Genome Biology 2010

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

Using Phenotype Ontologies in GVF

Terminology Artifacts

Gene Ontology

Models and Formats

No syntax standards defined

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Implementing Databases (0)

No Related Databases

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

This record is maintained by keilbeck

Funds

National Human Genome Research Institute (NHGRI), Bethesda, MD, USA (Government body)
U.S. National Library of Medicine (Government body)

Maintains

Sequence Ontology Administrators (Consortium)

Grant Number(s)

R44HG2991 (National Human Genome Research Institute (NHGRI), Bethesda, MD, USA)
R44HG3667 (National Human Genome Research Institute (NHGRI), Bethesda, MD, USA)

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