ENCODE - encode

Grade
The grade for the resource as automatically determined by the criteria violations.
4.5
Description
A full description of the resource from the resource itself, if possible.
The Encyclopedia of DNA Elements (ENCODE) 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.
Last curated
(Optional) The ISO 8601 date of when the resource was last curated.
Unknown
Location
URL for the resource.
https://www.genome.gov/10005107/
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.
biology
Type
The type of data the resource contains.
genomic resource
Categories
(Optional) Tags to describe the resource and its data.
genomic elements
Access
(Optional) Links to the resource's data.
api
download
download
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".
custom
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".
permissive
License location
(Optional) The link to the resource license.
https://www.genome.gov/27528022/encode-consortium-data-release-policy/
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 A.2: Easy and perfectly (re)usable, yet custom.
Commentary
(Optional) Further commentary on the license, possibly including the though process of the curations and things like locations of additional licenses.
• External data users may freely download, analyze and publish results based on any ENCODE data without restrictions as soon as they are released.
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.
https://www.genome.gov/10005049/questions-and-feedback/
Grants
(Optional) Semi-structured list of supporting grants.
TBD

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