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

Supratim Mukherjee | Zendy; Dimitri Stamatis | Zendy; Jon Bertsch | Zendy; Galina Ovchinnikova | Zendy; Olena Verezemska | Zendy; Michelle Isbandi | Zendy; Alex D. Thomas | Zendy; Rida Ali | Zendy; Kaushal Kishore Sharma | Zendy; Nikos C. Kyrpides | Zendy; T. B. K. Reddy | Zendy

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

Author(s) -

Supratim Mukherjee,

Dimitri Stamatis,

Jon Bertsch,

Galina Ovchinnikova,

Olena Verezemska,

Michelle Isbandi,

Alex D. Thomas,

Rida Ali,

Kaushal Kishore Sharma,

Nikos C. Kyrpides,

T. B. K. Reddy

Publication year - 2016

Publication title -

nucleic acids research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.008

H-Index - 537

eISSN - 1362-4954

pISSN - 0305-1048

DOI - 10.1093/nar/gkw992

Subject(s) - metadata , metagenomics , biology , genome , interface (matter) , computational biology , database , world wide web , computer science , genetics , gene , pulmonary surfactant , biochemistry , gibbs isotherm

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.

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