Vertebrate Trait Ontology
Countries that developed this resource United States
Created in 2011
How to cite this record FAIRsharing.org: VT; Vertebrate Trait Ontology; DOI: https://doi.org/10.25504/FAIRsharing.10gr18; Last edited: Feb. 4, 2020, 10:05 a.m.; Last accessed: Sep 16 2021 11:30 p.m.
Record updated: Feb. 4, 2020, 10:05 a.m. by The FAIRsharing Team.
Edits to 'https://fairsharing.org/FAIRsharing.10gr18' by 'The FAIRsharing Team' at 10:05, 04 Feb 2020 (approved): 'licences' has been modified: Before: After: Creative Commons Attribution 4.0 International (CC BY 4.0)|https://creativecommons.org/licenses/by/4.0/|Data Added: Creative Commons Attribution 4.0 International (CC BY 4.0)|https://creativecommons.org/licenses/by/4.0/|Data Removed: 'supportLinks' has been modified: Before: online documentation|https://sourceforge.net/projects/vtontology/ After: firstname.lastname@example.org forum|https://github.com/AnimalGenome/vertebrate-trait-ontology/issues Added: email@example.com forum|https://github.com/AnimalGenome/vertebrate-trait-ontology/issues Removed: online documentation|https://sourceforge.net/projects/vtontology/ 'homepage' has been modified: Before: http://bioportal.bioontology.org/ontologies/VT After: https://github.com/AnimalGenome/vertebrate-trait-ontology 'onto_disciplines' has been modified: Before: Biology Developmental Biology Life Science Ontology and Terminology Physiology After: Animal Physiology Biology Developmental Biology Ontology and Terminology Physiology Added: Animal Physiology Removed: Life Science 'dataProcesses' has been modified: Before: After: AgroPortal: Browse / Download Added: AgroPortal: Browse / Download Removed:
Edits to 'https://fairsharing.org/FAIRsharing.10gr18' by 'The FAIRsharing Team' at 12:15, 17 Dec 2019 (approved): 'onto_disciplines' has been modified: Before: Developmental Biology Life Science Ontology and Terminology Physiology After: Biology Developmental Biology Life Science Ontology and Terminology Physiology Added: Biology Removed:
Edits to 'https://fairsharing.org/FAIRsharing.10gr18' by 'The FAIRsharing Team' at 09:11, 06 Dec 2019 (approved): 'supportLinks' has been modified: Before: After: online documentation|https://sourceforge.net/projects/vtontology/ Added: online documentation|https://sourceforge.net/projects/vtontology/ Removed: 'homepage' has been modified: Before: http://sourceforge.net/projects/vtontology/ After: http://bioportal.bioontology.org/ontologies/VT
Edits to 'https://fairsharing.org/FAIRsharing.10gr18' by 'The FAIRsharing Team' at 09:08, 06 Dec 2019 (approved): 'onto_disciplines' has been modified: Before: Life Science Ontology and Terminology Physiology After: Developmental Biology Life Science Ontology and Terminology Physiology Added: Developmental Biology Removed: 'miriam_id' has been modified: Before: None After: 'onto_domains' has been modified: Before: morphology After: morphology phenotype Added: phenotype Removed:
Edits to 'https://fairsharing.org/FAIRsharing.10gr18' by 'The FAIRsharing Team' at 14:39, 03 May 2017 (approved): 'obo_abbreviation' has been modified: Before: vt After: vt
No XSD schemas defined
Conditions of UseApplies to: Data use
|AgroPortal: Browse / Download||http://agroportal.lirmm.fr/ontologies/VT|
No semantic standards defined
Models and Formats
No syntax standards defined
No identifier schema standards defined
No metrics standards defined
Characterizations of hundreds of strains of laboratory mice to facilitate translational discoveries and to assist in selection of strains for experimental studies. Data sets are voluntarily contributed by researchers or retrieved by us from public sources. MPD has three major types of strain-centric data sets: phenotype strain surveys, SNP and variation data, and gene expression strain surveys.
Rat Genome Database
The Rat Genome Database stores genetic, genomic, phenotype, and disease data generated from rat research. It provides access to corresponding data for eight other species, allowing cross-species comparison. Data curation is performed both manually and via an automated pipeline, giving RGD users integrated access to a wide variety of data to support their research.
Alliance of Genome Resources
The primary mission of the Alliance of Genome Resources (the Alliance) is to develop and maintain sustainable genome information resources that facilitate the use of diverse model organisms in understanding the genetic and genomic basis of human biology, health and disease.
Animal Quantitative Trait Loci (QTL) Database
The Animal Quantitative Trait Loci (QTL) Database (Animal QTLdb) strives to collect all publicly available trait mapping data, i.e. QTL (phenotype/expression, eQTL), candidate gene and association data (GWAS), and copy number variations (CNV) mapped to livestock animal genomes, in order to facilitate locating and comparing discoveries within and between species. New data and database tools are continually developed to align various trait mapping data to map-based genome features such as annotated genes.
Animal Trait Correlation Database
A genetic correlation is the proportion of shared variance between two traits that is due to genetic causes; a phenotypic correlation is the degree to which two traits co-vary among individuals in a population. In the genomics era, while gene expression, genetic association, and network analysis provide unprecedented means to decode the genetic basis of complex phenotypes, it is important to recognize the possible effects genetic progress in one trait can have on other traits. This database is designed to collect all published livestock genetic/phenotypic trait correlation data, aimed at facilitating genetic network analysis or systems biology studies
The Open Biological and Biomedical Ontology (OBO) Foundry is a collective of ontology developers that are committed to collaboration and adherence to shared principles. The mission of the OBO Foundry is to develop a family of interoperable ontologies that are both logically well-formed and scientifically accurate. To achieve this, OBO Foundry participants voluntarily adhere to and contribute to the development of an evolving set of principles including open use, collaborative development, non-overlapping and strictly-scoped content, and common syntax and relations, based on ontology models that work well, such as the Gene Ontology (GO). The OBO Foundry is overseen by an Operations Committee with Editorial, Technical and Outreach working groups.
BovineMine integrates the bovine reference genome assembly with many other biological data sets, including genomes of other species. The sheep and goat genomes allow comparison across ruminants. Model organism data (human, mouse, rat) allow well-curated data sets to be applied to ruminants using orthology.
Chickspress is a gene expression database for chicken tissues. Chickspress incorporates both NCBI and Ensembl gene models and links these gene sets with experimental gene expression data and QTL information. By linking gene models from both NCBI and Ensembl gene prediction pipelines, researchers can compare gene models from each of these prediction workflows to available experimental data. We use Chickspress data to show the differences between these gene annotation pipelines. Chickspress also provides rapid search, visualization and download capacity for chicken gene sets based upon tissue type, developmental stage and experiment type. Chickspress includes a core set of Red Jungle Fowl RNA and peptide data collected across multiple tissues from both male and female birds and public expression data sets.
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This record is maintained by AnimalGenome
U.S. National Library of Medicine (Government body)
University of Iowa (University)
2008-35205-18765 (National Institute of Food and Agriculture (NIFA), US Department of Agriculture (USDA), Washington DC, USA)