Database Commons

a catalog of biological databases

e.g., animal; RNA; Methylation; China

Database Profile

GVM

General information

URL: http://bigd.big.ac.cn/gvm/
Full name: Genome Variation Map
Description: The Genome Variation Map (GVM) is a public data repository of genome variations, including single nucleotide polymorphisms and small insertions and deletions, with particular focuses on human as well as cultivated plants and domesticated animals.
Year founded: 2017
Last update: 2021
Version: 1.0
Accessibility:
Manual:
Accessible
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Country/Region: China

Classification and Labelling

Data type:
DNA
Data object:
Database category:
Major organism:
Keywords:

Contact information

University/Institution: Beijing Institute of Genomics, Chinese Academy of Sciences
Address: No.1 Beichen West Road, Chaoyang District, Beijing 100101, China
City: Beijing
Province/State: Beijing
Country/Region: China
Contact name (PI/Team): Zhang Zhang
Contact email (PI/Helpdesk): gvm@big.ac.cn

Publications

33170268
Genome Variation Map: a worldwide collection of genome variations across multiple species. [PMID: 33170268]
Li C, Tian D, Tang B, Liu X, Teng X, Zhao W, Zhang Z, Song S.

The Genome Variation Map (GVM; http://bigd.big.ac.cn/gvm/) is a public data repository of genome variations. It aims to collect and integrate genome variations for a wide range of species, accepts submissions of different variation types from all over the world and provides free open access to all publicly available data in support of worldwide research activities. Compared with the previous version, particularly, a total of 22 species, 115 projects, 55 935 samples, 463 429 609 variants, 66 220 associations and 56 submissions (as of 7 September 2020) were newly added in the current version of GVM. In the current release, GVM houses a total of ∼960 million variants from 41 species, including 13 animals, 25 plants and 3 viruses. Moreover, it incorporates 64 819 individual genotypes and 260 393 manually curated high-quality genotype-to-phenotype associations. Since its inception, GVM has archived genomic variation data of 43 754 samples submitted by worldwide users and served >1 million data download requests. Collectively, as a core resource in the National Genomics Data Center, GVM provides valuable genome variations for a diversity of species and thus plays an important role in both functional genomics studies and molecular breeding.

Nucleic Acids Res. 2021:49(D1) | 6 Citations (from Europe PMC, 2022-05-14)
29069473
Genome Variation Map: a data repository of genome variations in BIG Data Center. [PMID: 29069473]
Song S, Tian D, Li C, Tang B, Dong L, Xiao J, Bao Y, Zhao W, He H, Zhang Z.

The Genome Variation Map (GVM; http://bigd.big.ac.cn/gvm/ ) is a public data repository of genome variations. As a core resource in the BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, GVM dedicates to collect, integrate and visualize genome variations for a wide range of species, accepts submissions of different types of genome variations from all over the world and provides free open access to all publicly available data in support of worldwide research activities. Unlike existing related databases, GVM features integration of a large number of genome variations for a broad diversity of species including human, cultivated plants and domesticated animals. Specifically, the current implementation of GVM not only houses a total of ?4.9 billion variants for 19 species including chicken, dog, goat, human, poplar, rice and tomato, but also incorporates 8669 individual genotypes and 13 262 manually curated high-quality genotype-to-phenotype associations for non-human species. In addition, GVM provides friendly intuitive web interfaces for data submission, browse, search and visualization. Collectively, GVM serves as an important resource for archiving genomic variation data, helpful for better understanding population genetic diversity and deciphering complex mechanisms associated with different phenotypes. ? The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

Nucleic Acids Res. 2018:46(D1) | 24 Citations (from Europe PMC, 2022-05-14)

Ranking

All databases:
1131/5177 (78.173%)
Genotype phenotype and variation:
159/752 (78.989%)
1131
Total Rank
30
Citations
7.5
z-index

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Record metadata

Created on: 2017-11-05
Curated by:
lin liu [2021-11-08]
Dong Zou [2021-10-19]
Dong Zou [2019-01-18]
lin liu [2017-11-06]
lin liu [2017-11-05]