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Nucleic Acids Res. 2017 Jan 4;45(D1):D446-D456. doi: 10.1093/nar/gkw992. Epub 2016 Oct 27.

Genomes OnLine Database (GOLD) v.6: data updates and feature enhancements.

Author information

1
Prokaryotic Super Program, DOE Joint Genome Institute, Walnut Creek, 94598 CA, USA.
2
Prokaryotic Super Program, DOE Joint Genome Institute, Walnut Creek, 94598 CA, USA nckyrpides@lbl.gov.
3
Department of Biological Sciences, Faculty of Science, King Abdulaziz University, Jeddah, Saudi Arabia.
4
Prokaryotic Super Program, DOE Joint Genome Institute, Walnut Creek, 94598 CA, USA tbreddy@lbl.gov.

Abstract

The Genomes Online Database (GOLD) (https://gold.jgi.doe.gov) is a manually curated data management system that catalogs sequencing projects with associated metadata from around the world. In the current version of GOLD (v.6), all projects are organized based on a four level classification system in the form of a Study, Organism (for isolates) or Biosample (for environmental samples), Sequencing Project and Analysis Project. Currently, GOLD provides information for 26 117 Studies, 239 100 Organisms, 15 887 Biosamples, 97 212 Sequencing Projects and 78 579 Analysis Projects. These are integrated with over 312 metadata fields from which 58 are controlled vocabularies with 2067 terms. The web interface facilitates submission of a diverse range of Sequencing Projects (such as isolate genome, single-cell genome, metagenome, metatranscriptome) and complex Analysis Projects (such as genome from metagenome, or combined assembly from multiple Sequencing Projects). GOLD provides a seamless interface with the Integrated Microbial Genomes (IMG) system and supports and promotes the Genomic Standards Consortium (GSC) Minimum Information standards. This paper describes the data updates and additional features added during the last two years.

PMID:
27794040
PMCID:
PMC5210664
DOI:
10.1093/nar/gkw992
[Indexed for MEDLINE]
Free PMC Article

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