OncoKB - oncokb

Grade
The grade for the resource as automatically determined by the criteria violations.
3.5
Description
A full description of the resource from the resource itself, if possible.
OncoKB is a precision oncology knowledge base and contains information about the effects and treatment implications of specific cancer gene alterations. It is developed and maintained by the Knowledge Systems group in the Marie Josée and Henry R. Kravis Center for Molecular Oncology at Memorial Sloan Kettering Cancer Center (MSK), in partnership with Quest Diagnostics.
Last curated
(Optional) The ISO 8601 date of when the resource was last curated.
2017-12-03
Location
URL for the resource.
http://oncokb.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.
biology
Type
The type of data the resource contains.
human
Categories
(Optional) Tags to describe the resource and its data.
variants
cancer genes
gene expression
Access
(Optional) Links to the resource's data.
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".
restrictive
License location
(Optional) The link to the resource license.
http://oncokb.org/#/terms
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: While custom, the terms are quite clear.
Criteria D.1.1: Restrictions on type of use appear in the license, even or research:"You may copy, reproduce, or create derivative works of the Content only if:...you are using the Content only to replicate OncoKB locally, whether in whole or in part; or you are aggregating the Content with other data of similar nature for the purposes of advancing cancer research."
Criteria E.1.1: Restrictions exist on who may use the data: "You may copy, reproduce, or create derivative works of the Content only if: you are a researcher or a non-profit entity; and..."
Commentary
(Optional) Further commentary on the license, possibly including the though process of the curations and things like locations of additional licenses.
• While there does not seem to be any clear licensing information currently on the site, from a separate conversation (https://github.com/geneontology/noctua/issues/510#issuecomment-334864073), it would seem that this will soon be updated.
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.
team@oncokb.org
Grants
(Optional) Semi-structured list of supporting grants.
TBD

All copyrightable materials on this site are © 2017 the (Re)usable Data Project under the CC-BY 4.0 license.
ReusableData.org is funded by the National Center for Advancing Translational Sciences (NCATS) OT3 TR002019 as part of the Biomedical Data Translator project.
The (Re)usable Data Project would like to acknowledge the assistance of many more people than can be listed here. Please visit the about page for the full list.