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Data from: Tripal EUtils - A Tripal module to increase exchange and reuse of genome assembly metadata

A core component of NCBI’s BioSample metadata are the BioSample “packages” (https://www.ncbi.nlm.nih.gov/biosample/docs/packages/). Data submitters can choose a package, which contain a variety of attribute sets, such as plant- or insect-specific attributes, attribute values as recommended by the MIxS standard, etc. Here, we provide suggested ontology term mappings for attributes from the Invertebrate 1.0 and Plant 1.0 packages (https://www.ncbi.nlm.nih.gov/biosample/docs/packages/Invertebrate.1.0/, https://www.ncbi.nlm.nih.gov/biosample/docs/packages/Plant.1.0/). This dataset corresponds to Table 4 in the corresponding publication in the journal Database.

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FieldValue
Tags
Tripal
Chado
NCBI
metadata
metadata map
BioSample
Modified
2022-01-03
Release Date
2019-10-28
Identifier
2110130c-16b0-4bed-adee-5290cb85521a
Publisher
Ag Data Commons
License
U.S. Public Domain
Data Dictionary

https://data.nal.usda.gov/dataset/data-tripal-eutils-tripal-module-incre...
Contact Name
Poelchau, Monica
Contact Email
monica.poelchau@usda.gov
Public Access Level
Public
Bureau Code
005:00 - Department of Agriculture
Extended Metadata: 
FieldValue
Authors
Condon, Bradford (ORCID)
Almsaeed, Abdullah (ORCID)
Buehler, Sean (ORCID)
Childers, Christopher (ORCID)
Ficklin, Stephen (ORCID)
Staton, Margaret (ORCID)
Poelchau, Monica (ORCID)
Peer Reviewed
No
Intended Use
The ontology term mappings are intended to be used by other databases that provide NCBI BioSample metadata from the Invertebrate 1.0 (https://www.ncbi.nlm.nih.gov/biosample/docs/packages/Invertebrate.1.0/) and Plant 1.0 (https://www.ncbi.nlm.nih.gov/biosample/docs/packages/Plant.1.0/) packages
Use Limitations
These mappings should be deprecated if NCBI publishes their own ontology term mappings for these packages.
Funding Sources
Agricultural Research Service
National Science Foundation
1444573
Primary Article

Condon, B., Almsaeed, A., Buehler, S., Childers, C. P., Ficklin, S. P., Staton, M. E., & Poelchau, M. F. (2020). Tripal EUtils: a Tripal module to increase exchange and reuse of genome assembly metadata. Database, 2020. https://doi.org/10.1093/database/baz143
Dataset DOI (digital object identifier)
10.15482/USDA.ADC/1505452
Product Type
Other
Related Content
Invertebrate 1.0 Package
Plant 1.0 Package
FieldValue
OSTI Identifier
ISO Topic(s)
biota
National Agricultural Library Thesaurus Term
genome assembly
invertebrates
Ag Data Commons Keywords
  • Genomics & Genetics
  • Genome
  • Genome assembly
  • Genomics & Genetics
  • Genome
  • Genomics & Genetics
Program
Insects 5K – i5K

Suggested Citations:

(original article) Condon, B., Almsaeed, A., Buehler, S., Childers, C. P., Ficklin, S. P., Staton, M. E., & Poelchau, M. F. (2020). Tripal EUtils: a Tripal module to increase exchange and reuse of genome assembly metadata. Database, 2020. https://doi.org/10.1093/database/baz143

(dataset) Condon, Bradford; Almsaeed, Abdullah; Buehler, Sean; Childers, Christopher; Ficklin, Stephen; Staton, Margaret; Poelchau, Monica (2019). Data from: Tripal EUtils - A Tripal module to increase exchange and reuse of genome assembly metadata. Ag Data Commons. https://doi.org/10.15482/USDA.ADC/1505452. Accessed 2023-03-20.