FAIRness of LINCS Datasets and Tools

project

FAIR evaluation of the LINCS NIH Program tools and datasets

Tags: DCPPC

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Project Assessments (16)


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. ANISEED database The metadata includes a title for the data resource The metadata includes a description of what the data is about no cost to access the data resource
LDG-1042: LDS-1045 The FAIRshake dataset rubric
                  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)                           Sep 4, 2018
LDG-1107: LDS-1110 The FAIRshake dataset rubric
                  yesbut (0.75) yes (1.00) no (0.00) yes (1.00) yes (1.00) yes (1.00) yes (1.00) no (0.00) yes (1.00)                           Sep 4, 2018
LINCS Data Portal The FAIRshake tool rubric
no (0.00) yes (1.00) nobut (0.25) nobut (0.25) nobut (0.25) no (0.00) yes (1.00) yes (1.00) yesbut (0.75)                                             Sep 4, 2018
Immune Epitope Database and Analysis Resource (IEDB) The FAIRshake repository rubric
                                    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)         Sep 4, 2018
Mouse Genome Informatics: Gene Expression Literature Query The FAIRshake tool rubric
yes (1.00) yes (1.00) yes (1.00) yes (1.00) no (0.00) no (0.00) yes (1.00) yesbut (0.75) yesbut (0.75)                                             Sep 4, 2018
Mouse Genome Informatics: Mouse Developmental Anatomy Browser The FAIRshake tool rubric
yes (1.00) yes (1.00) yes (1.00) no (0.00) no (0.00) no (0.00) yes (1.00) yesbut (0.75) yesbut (0.75)                                             Sep 4, 2018
LINCS Test Object FAIRshake JSON-LD Rubric
                  no (0.00)       no (0.00)   no (0.00)   no (0.00) no (0.00)           no (0.00)   no (0.00)   no (0.00) no (0.00) no (0.00) Sep 27, 2018
LDG-1071: LDS-1074 The FAIRshake dataset rubric
                  no (0.00) no (0.00) no (0.00) no (0.00) no (0.00) no (0.00) no (0.00) no (0.00) no (0.00)                           Oct 15, 2018
Drug Response Browser The FAIRshake tool rubric
yes (1.00) yesbut (0.75) no (0.00) nobut (0.25) no (0.00) no (0.00) yes (1.00) nobut (0.25) nobut (0.25)                                             Mar 5, 2019
iLINCS The FAIRshake tool rubric
yes (1.00) yes (1.00) nobut (0.25) yes (1.00) no (0.00) yes (1.00) yes (1.00) yes (1.00) no (0.00)                                             Apr 15, 2019
L1000CDS2 The FAIRshake tool rubric
                                                              Apr 26, 2019
Drug-Pathway Browser The FAIRshake tool rubric
                                                              Oct 30, 2019
Query App The FAIRshake tool rubric
                                                              Jan 9, 2020
Breast Cancer Browser The FAIRshake tool rubric
                                                              Dec 3, 2020
LINCS Data Portal The FAIRshake tool rubric
                                                              Mar 1, 2021
LINCS Data Portal The FAIRshake tool rubric
yes (1.00) yes (1.00) yesbut (0.75) no (0.00) no (0.00) no (0.00) nobut (0.25) yesbut (0.75) yes (1.00)                                             Apr 14, 2021