exRNA: CFDE Fairness Assessment

project

ERCC-exRNA FAIRness assessment with the exRNA Atlas, ClinGen Allele Registry, and Linked Data Hub

Tags: exRNA

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Project Assessments (13)


Assessment Metrics Date
Target Rubric   The tool has a unique name and an informative description. The tool can be freely downloaded or accessed from a webpage. The tool utilizes a community-accepted ontology. Tutorials for the tool are available on the tool’s homepage. Source code is shared in a public repository and is documented. Previous versions of the tool are made available. Contact information is provided for the creator(s) of the tool and information describing how to cite the tool is provided. The tool can be accessed programmatically through an API and follows community standards for open APIs. Licensing information is provided on the tool’s homepage. A standardized ID or accession number is used to identify the dataset. The dataset is described with metadata using a formal, broadly applicable vocabulary. Information is provided on the experimental methods used to generate the data. The dataset is hosted in an established data repository, if a relevant repository exists. The dataset can be downloaded for free from the repository. Version information is provided for the dataset. Contact information is provided for the creator(s) of the dataset. Information is provided describing how to cite the dataset. Licensing information is provided on the dataset’s landing page. The structure of the repository permits efficient discovery of data and metadata by end users. The repository uses a standardized protocol to permit access by users. The repository provides contact information for staff to enable users with questions or suggestions to interact with repository experts. Tools that can be used to analyze each dataset are listed on the corresponding dataset pages. The repository maintains licenses to manage data access and use. The repository hosts data and metadata according to a set of defined criteria to ensure that the resources provided are consistent with the intent of the repository. The repository provides documentation for each resource to permit its complete and accurate citation. A description of the methods used to acquire the data is provided. Version information is provided for each resource, where available. What specific vocabularies or ontologies are used or required in submissions to your resource? Do you assign unique, persistent identifiers to some or all of your assets? Does uploading data require authentication? Is there a specific file format for submission to the resource? Is your public API or APIs built according to some API standard? For example, GA4GH, OpenAPI, FHIR. Globally unique identifier Machine-readable metadata Standardized metadata Resource identifier in metadata Open, Free, Standardized Access protocol Digital resource license Metadata license NIH program name is available for querying NIH project name is available for querying The institution that created this dataset is available A biological assay is present and resolvable in CFDE-specified ontology (OBI) A relevant anatomical part is present and resolvable in the UBERON Ontology A relevant disease is present and resolvable in the MONDO Ontology A relevant file type is present and resolvable in the EDAM Ontology A relevant taxonomy is present and resolvable in the NCBITaxon Ontology A relevant cell line is present and resolvable in the Cellosaurus Ontology A landing page exists and is accessible Licensing information is provided on the tools home page The tool has a unique name and an informative description The tool can be freely downloaded or accessed from a webpage Machine readable metadata Tutorials for the tool are available on the tool’s homepage Source code is shared in a public repository and is documented Contact information is provided for the creator(s) of the tool and information describing how to cite the tool is provided The tool can be accessed programmatically through an API and follows community standards for open APIs A standardized ID or accession number is used to identify the dataset Do the Data repository use any Identifiers? Do the repository have metadata records/files describing the data? In which format data is described with metadata? Does data repository is registered in any Registry? Does the structure of the Repository allow discovery of data and metadata by end user? Does Data repository uses any protocol to allow access by user? Does the data repository provide public API? Do the data repository provide versioning information of datasets? Does Data repository uses Title for the data resource in Data? ANISEED database The service has a landing page and accessible The service has a global unique identifier The service has an unique name and an informative description The service can be freely downloaded or accessed from a webpage The service utilizes a community-accepted nomenclature Tutorials for the service are available on the homepage Licensing information is provided on the homepage Versions of the service are displayed on the homepage Contact information is provided for the creator(s) of the service and information describing how to cite the service is provided The service can be accessed programmatically Machine readable data A standardized ID or accession number is used to identify the dataset
exRNA Atlas The FAIRshake repository rubric
                                    yes (1.00) yes (1.00) yes (1.00) yes (1.00) nobut (0.25) yes (1.00) yes (1.00) yes (1.00) yes (1.00)                                                                                                           Apr 21, 2022
exRNA Atlas NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric
                              yes (1.00)                                 yes (1.00) yes (1.00) no (0.00) yes (1.00) yes (1.00) no (0.00) no (0.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) yesbut (0.75) yes (1.00) yesbut (0.75) no (0.00) yes (1.00)                                                               Apr 21, 2022
exRNA Atlas Findable and Accessible FAIR Principles for Research Data Repositories
                                                                                                                    yes (1.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00)                           Apr 21, 2022
Linked Data Hub The FAIRshake tool rubric
yes (1.00) yes (1.00) yes (1.00) nobut (0.25) no (0.00) yes (1.00) yesbut (0.75) yes (1.00) no (0.00)                                                                                                                     no (0.00)                         Apr 21, 2022
Linked Data Hub The FAIRshake dataset rubric
                  yes (1.00) no (0.00) no (0.00) nobut (0.25) yes (1.00) yes (1.00) yes (1.00) yes (1.00) no (0.00)                                                                                                                             Apr 26, 2022
exRNA Atlas The FAIRshake dataset rubric
                  yes (1.00) yes (1.00) yes (1.00) yesbut (0.75) yes (1.00) yes (1.00) yes (1.00) yes (1.00) nobut (0.25)                                                                                                                             Apr 26, 2022
Linked Data Hub Common Fund Tools Assessments
                                                                                                  no (0.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) no (0.00) yes (1.00) yes (1.00) yes (1.00)                                             Apr 27, 2022
ClinGen Allele Registry BRL Resource FAIRness Metrics
                                                      yes (1.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00)                                                                         yes (1.00) no (0.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) nobut (0.25) nobut (0.25) yes (1.00) yes (1.00) yes (1.00) yes (1.00) Dec 14, 2023
Linked Data Hub BRL Resource FAIRness Metrics
                                                      yes (1.00) yes (1.00)                                                                                                       Jul 25, 2024
CFDE GeneReg LDH BRL Resource FAIRness Metrics
                                                      yes (1.00)   yes (1.00) yes (1.00) yes (1.00)                                                                         yes (1.00) maybe (0.50) yes (1.00) yes (1.00) yes (1.00) nobut (0.25) no (0.00) nobut (0.25) yesbut (0.75) yes (1.00) yes (1.00) yes (1.00) Dec 17, 2024
CFDE GeneReg LDH BRL Resource FAIRness Metrics
                                                      yes (1.00)   yes (1.00) yes (1.00) yes (1.00)                                                                         yes (1.00) no (0.00) yes (1.00) yes (1.00) yes (1.00) nobut (0.25) no (0.00) nobut (0.25) nobut (0.25) yes (1.00) yes (1.00) yes (1.00) Dec 19, 2024
Genomic Loci Registry BRL Resource FAIRness Metrics
                                                      yes (1.00)   yes (1.00) yes (1.00) yes (1.00)                                                                         yes (1.00) no (0.00) yesbut (0.75) yes (1.00) yes (1.00) yes (1.00) no (0.00) no (0.00) no (0.00) yes (1.00) yes (1.00) yes (1.00) Jul 7, 2025
exGLid Service BRL Resource FAIRness Metrics
                                                      yes (1.00)   yes (1.00) yes (1.00) yes (1.00)                                                                         yes (1.00) no (0.00) yesbut (0.75) yes (1.00) yes (1.00) no (0.00) yes (1.00) yes (1.00) nobut (0.25) yes (1.00) yes (1.00) yes (1.00) Jul 7, 2025