UBER anatomy ONtology
How to cite this record FAIRsharing.org: UBERON; UBER anatomy ONtology; DOI: https://doi.org/10.25504/FAIRsharing.4c0b6b; Last edited: March 13, 2019, 11:04 a.m.; Last accessed: Mar 21 2019 6:06 a.m.
Publication for citation Uberon, an integrative multi-species anatomy ontology. Mungall CJ,Torniai C,Gkoutos GV,Lewis SE,Haendel MA; Genome Biol ; 2012; 10.1186/gb-2012-13-1-r5;
Record updated: March 13, 2019, 11:04 a.m. by The FAIRsharing Team.
Edits to 'https://fairsharing.org/FAIRsharing.4c0b6b' by 'The FAIRsharing Team' at 11:04, 13 Mar 2019 (approved): 'licences' has been modified: Before: Creative Commons Attribution-ShareAlike 3.0 Unported (CC BY-SA 3.0)|https://creativecommons.org/licenses/by-sa/3.0/|Data After: Creative Commons Attribution 3.0 Unported (CC BY 3.0)|https://creativecommons.org/licenses/by/3.0/|Data Added: Creative Commons Attribution 3.0 Unported (CC BY 3.0)|https://creativecommons.org/licenses/by/3.0/|Data Removed: Creative Commons Attribution-ShareAlike 3.0 Unported (CC BY-SA 3.0)|https://creativecommons.org/licenses/by-sa/3.0/|Data 'supportLinks' has been modified: Before: mailing firstname.lastname@example.org. online documentation|http://en.wikipedia.org/wiki/Uberon online documentation|https://plus.google.com/+UberonOrg online documentation|https://github.com/obophenotype/uberon/wiki/Manual rss|http://berkeleybop.org/ontologies/uberon/diffs/new_term.rss twitter|@uberanat After: forum|https://github.com/obophenotype/uberon/issues mailing email@example.com online documentation|https://github.com/obophenotype/uberon online documentation|https://github.com/obophenotype/uberon/wiki/Manual twitter|@uberanat wikipedia|http://en.wikipedia.org/wiki/Uberon Added: forum|https://github.com/obophenotype/uberon/issues mailing firstname.lastname@example.org online documentation|https://github.com/obophenotype/uberon wikipedia|http://en.wikipedia.org/wiki/Uberon Removed: mailing email@example.com. online documentation|http://en.wikipedia.org/wiki/Uberon online documentation|https://plus.google.com/+UberonOrg rss|http://berkeleybop.org/ontologies/uberon/diffs/new_term.rss 'homepage' has been modified: Before: http://uberon.github.io After: http://uberon.org/
Edits to 'https://fairsharing.org/FAIRsharing.4c0b6b' by 'The FAIRsharing Team' at 23:28, 30 Nov 2016 (approved): 'homepage' has been modified: Before: http://uberon.org After: http://uberon.github.io
Edits to 'https://fairsharing.org/FAIRsharing.4c0b6b' by 'The FAIRsharing Team' at 16:08, 04 Sep 2016 (approved): 'obo_abbreviation' has been modified: Before: After: UBERON Domain list has changed: Previous values: Anatomy|process|http://ontology.neuinfo.org/NIF/DigitalEntities/NIF-Scientific-Discipline.owl#nlx_inv_100605 New values: Anatomy|process|http://ontology.neuinfo.org/NIF/DigitalEntities/NIF-Scientific-Discipline.owl#nlx_inv_100605 Life Science|domain| Ontology Standardization|None| Standard|information content entity| Developmental Biology|None| Support links have changed: Previous values: obo-anatomy[at]lists.sourceforge.net. http://en.wikipedia.org/wiki/Uberon https://plus.google.com/+UberonOrg New values: firstname.lastname@example.org. http://en.wikipedia.org/wiki/Uberon https://plus.google.com/+UberonOrg https://github.com/obophenotype/uberon/wiki/Manual @uberanat http://berkeleybop.org/ontologies/uberon/diffs/new_term.rss Tools have changed: Previous values: New values: Phenoscape Data processes have changed: Previous values: New values: download browse
|forum||GitHub Issue Tracker|
|Mailing List||OBO Anatomy Mailing List|
|online documentation||GitHub Repository|
|online documentation||User Manual|
|wikipedia||UBERON Wikipedia Entry|
No XSD schemas defined
Conditions of UseApplies to: Data use
Uberon, an integrative multi-species anatomy ontology.
Mungall CJ,Torniai C,Gkoutos GV,Lewis SE,Haendel MA
Genome Biol 2012
Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon.
Haendel MA,Balhoff JP,Bastian FB,Blackburn DC,Blake JA,Bradford Y,Comte A,Dahdul WM,Dececchi TA,Druzinsky RE,Hayamizu TF,Ibrahim N,Lewis SE,Mabee PM,Niknejad A,Robinson-Rechavi M,Sereno PC,Mungall CJ
J Biomed Semantics 2014
Models and Formats
No syntax standards defined
No identifier schema standards defined
No metrics standards defined
Bgee is a database to retrieve and compare gene expression patterns in multiple animal species, produced from multiple data types (RNA-Seq, Affymetrix, in situ hybridization, and EST data). Bgee is based exclusively on curated "normal", healthy, expression data (e.g., no gene knock-out, no treatment, no disease), to provide a comparable reference of normal gene expression. Bgee produces calls of presence/absence of expression, and of differential over-/under-expression, integrated along with information of gene orthology, and of homology between organs. This allows comparisons of expression patterns between species.
The ENCODE (Encyclopedia of DNA Elements) Consortium is an international collaboration of research groups funded by the National Human Genome Research Institute (NHGRI). The goal of ENCODE is to build a comprehensive parts list of functional elements in the human genome, including elements that act at the protein and RNA levels, and regulatory elements that control cells and circumstances in which a gene is active. ENCODE results from 2007 and later are available from this project. This covers data generated during the two production phases 2007-2012 and 2013-present.
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.
This record is not implemented by any policy.
National Science Foundation (NSF), USA (Government body)
National Institutes of Health (NIH), Bethesda, MD, USA (Government body)
UBERON administrators (Consortium) Lead