Monarch Initiative - monarch

Grade: The grade for the resource as automatically determined by the criteria violations.; 0.5
Description: A full description of the resource from the resource itself, if possible.; Integrate, align, and re-distribute cross-species gene, genotype, variant, disease, and phenotype data. Provide a portal for exploration of phenotype-based similarity. Facilitate identification of animal models of human disease through phenotypic similarity. Enable quantitative comparison of cross-species phenotypes. Develop embeddable widgets for data exploration. Influence genotype and phenotype reporting standards. Improve ontologies to better curate genotype-phenotype data.
Last curated: (Optional) The ISO 8601 date of when the resource was last curated.; Unknown
Location: URL for the resource.; https://monarchinitiative.org
Source type: (Optional) How the resource relates to the data it contains. Current allowable entries are: "unknown", "repository", "source", "integrator", and "warehouse".; integrator
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.; x-species
Categories: (Optional) Tags to describe the resource and its data.; gene
genotype
disease
phenotype
variant
disease-phenotype associations
genotype-phenotype associations
Access: (Optional) Links to the resource's data.; api
download
License: The license that is used by the resource. We use SPDX where we can or: "inconsistent", "public domain", "unlicensed", "all rights reserved", or "custom".; inconsistent
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 "unknown" is used. Current possible values are: "unknown", "unlicensed", "copyleft", "permissive", "public domain", "copyright", "restrictive", or "private pool".; unknown
License location: (Optional) The link to the resource license.; https://monarchinitiative.org
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.1.1: Text in footer: "Except where forbidden by the original sources..."; how these interact is not clear. There is no indication of which data has what sources, so reusability cannot be determined.
Criteria C.1: The scope of the API is not clear and the data downloads locations are apparently not public.
Commentary: (Optional) Further commentary on the license, possibly including the though process of the curations and things like locations of additional licenses.; • I could not find a direct reference to whether the data found at the API and downloads were complete in scope.
• Apparent license found in footer of all pages.
• Except where forbidden by the original sources, this work is licensed under a Creative Commons Attribution 3.0 License.
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.; info@monarchinitiative.org
Grants: (Optional) Semi-structured list of supporting grants.; TBD