BGee (ontology) - bgee-ontology

Grade
The grade for the resource as automatically determined by the criteria violations.
4
Description
A full description of the resource from the resource itself, if possible.
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).
Last curated
(Optional) The ISO 8601 date of when the resource was last curated.
Unknown
Location
URL for the resource.
http://bgee.org
Source type
(Optional) How the resource relates to the data it contains. Current allowable entries are: "unknown", "repository", and "source", and "integrator".
TBD
Curation status
Whether or not annotation is complete on this resource. Current allowable entries are: "complete", "incomplete", and "nonpublic".
complete
Field
The area of research for the resource.
biomedical
Type
The type of data the resource contains.
expression data
Categories
(Optional) Tags to describe the resource and its data.
ontology
Access
(Optional) Links to the resource's data.
download: CIO
download: HO
download: ASA
License
The license that is used by the resource. We use SPDX where we can (https://spdx.org/licenses/) or: "unknown", "public domain", "all rights reserved", or "custom".
GPL-3.0
License type
The type of license that is being used. This will be to define compatible data pools in the future; we only use the grossest terms now. If it is not known "TODO" is used. Current possible values are: "unknown", "copyleft", "permissive", "public domain", "copyright", "restrictive", or "closed pool".
copyleft
License location
(Optional) The link to the resource license.
https://github.com/BgeeDB/
Focused curation
(Optional) Setting this flag to true indicates that the licensing was combinatorially complicated enough (as is the case in some commercial licenses) that the curator chose to wear a single "hat" during the process. From the site text: "While we try to cover as much of the licensing possibilities of a data resource that we can, in a few cases we may choose a particular "hat" to wear while evaluating to prevent a combinatorial explosion, which may also reduce the clarity of our curations for the community. In these cases, we may take on the role of a (1) non-commercial (2) academic (3) group that is (4) based in the US and trying to (5) create an aggregating resource, noting that other entities may have different results in the license commentary."
false
Issues
(Optional) Structured issues with the license. For every issue discovered with a resource, there should be a corresponding item in the license-issues field that marks the /exact/ violation, along with any comments. This field can be used by resources as the first step to improvement, as well as clarify any surrounding circumstances. Any issues or thoughts about a resource that do not slot into one of the criteria violations can go into the license-commentary field.
Criteria D.1.2: By using the GPLv3, there may be issues in mixing and redistributing this data with licenses that have incompatible terms.
Commentary
(Optional) Further commentary on the license, possibly including the though process of the curations and things like locations of additional licenses.
• It is somewhat unclear, but apparently all ontology data is under the listed GNU GPL v.3.0; this may be problematic for some types of reuse.
Controversial
(Optional) Marker noting that there was some extended internal discussion or controversy about the evaluation of the licensing terms. If this is marked at "true", the controversy, or a link to a permanent archive of the controversy, must be sufficiently contained in the "license-commentary" to reconstruct the issues.
false
Contacts
(Optional) Resource contact information, link, email, or whatever is public.
Bgee@isb-sib.ch
Grants
(Optional) Semi-structured list of supporting grants.
TBD

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ReusableData.org is funded by the National Center for Advancing Translational Sciences (NCATS) OT3 TR002019 as part of the Biomedical Data Translator project.
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