Genomes OnLine database (GOLD) v.7: updates and new features
Open accessAbstract
The Genomes Online Database (GOLD) (https://gold.jgi.doe.gov) is an open online resource, which maintains an up-to-date catalog of genome and metagenome projects in the context of a comprehensive list of associated metadata. Information in GOLD is organized into four levels: Study, Biosample/Organism, Sequencing Project and Analysis Project. Currently GOLD hosts information on 33 415 Studies, 49 826 Biosamples, 313 324 Organisms, 215 881 Sequencing Projects and 174 454 Analysis Projects with a total of 541 metadata fields, of which 80 are based on controlled vocabulary (CV) terms. GOLD provides a user-friendly web interface to browse sequencing projects and launch advanced search tools across four classification levels. Users submit metadata on a wide range of Sequencing and Analysis Projects in GOLD before depositing sequence data to the Integrated Microbial Genomes (IMG) system for analysis. GOLD conforms with and supports the rules set by the Genomic Standards Consortium (GSC) Minimum Information standards. The current version of GOLD (v.7) has seen the number of projects and associated metadata increase exponentially over the years. This paper provides an update on the current status of GOLD and highlights the new features added over the last two years.
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MGnify curators add supplementary metadata to imported studies, assigning a relevant biome selected from GOLD biosample hierarchy.
“The distinction between MGnify studies and ENA projects is important, as MGnify curators add supplementary metadata to imported studies, assigning a relevant biome selected from the Genomes OnLine Database (GOLD) (17) biosample hierarchy.”
From MGnify: the microbiome analysis resource in 2020 (2019) · cites this paper as [17]
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- Authors
- Mukherjee, S., Stamatis, D., Bertsch, J., Ovchinnikova, G., Katta, H. Y., Mojica, A., Chen, I.-M. A., Kyrpides, N. C., & Reddy, T.
- Affiliations
- Joint Genome Institute (US)
- Corresponding author
- Kyrpides, Nikos C
- Reddy, TBK
- ORCID
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2018-10-24
- Volume
- 47
- Issue
- D1
- Pages
- D649-D659
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- PMC
- PMC6323969
- OpenAlex
- W2898201023
- Cited by
- 230
- References
- 30
- Citations by year
- 2026: 7 · 2025: 1 · 2024: 12 · 2023: 12 · 2022: 28 · 2021: 58 · 2020: 82 · 2019: 28 · 2018: 1 · 2015: 1
- FWCI
- 15.11
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- public-domain
- Locations
- Nucleic Acids Research (publishedVersion, public-domain)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- eScholarship (California Digital Library) (submittedVersion)
- Funders
- Department of Energy Joint Genome Institute (DE-AC02-05CH11231)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Physical Sciences › Computer Science › Information Systems › Research Data Management Practices
- Social Sciences › Decision Sciences › Information Systems and Management › Scientific Computing and Data Management
- Keywords
- genome projects, metadata catalog, controlled vocabulary, Genomic Standards Consortium, microbial genomics, online databases
- MeSH terms
- Software, Genomics, Databases, Genetic, Gene Ontology
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