This checklist contains the tasks required for Sage Bionetworks and a funder to start a “study” on the NF Data Portal. A “study” is a funded project, and usually corresponds to one specific grant (though sometimes can be more than one grant).
Award and Milestones:
NTAP: Confirm that all documents required for award are present in NTAP shared drive.
NTAP: Generate a statement of work (SOW) with tentative milestones and expected upload of key data
NTAP: Send preliminary SOW to Sage
Sage: Review preliminary SOW to identify key datasets that can be uploaded to Synapse. Key datasets generally fulfill one or more of the following criteria:
Dataset contains more than 20 samples in the dataset or generated from patient samples (N > 5)
Dataset contains data generated using high-throughput methods that output raw data presented in a widely used systematic format
Omics data derived from unbiased techniques
Dataset considered to be validation data for a new method
Dataset considered to be of interest to the funding partner
Sage: Perform research/literature review on new data types and file formats of proposed novel experiments (if needed) to propose expectations of formats and number of files for experiments proposed in the SOW
Sage: File an internal pull request on NF-OSI study-configs repository to start preparing a YAML file to generate a table outlining the Milestones, expected data types, expected file formats, expected number of files. The pull request should be named according to the following convention - “YYYY-NTAP-<Awardee-name>” and request internal review.
Sage: Add the unified table (or a preliminary data sharing plan) generated from the internal review process into the SOW and send it to NTAP for review.
NTAP: Email finalized SOW to the awardee and respond to awardee’s questions or concerns regarding the SOW.
NTAP: Send the finalized SOW to Sage with any changes to the table of expected data.
Sage: Commit changes to the open pull request (“YYYY-NTAP-<Awardee-name>”) according to the finalized table of expected data in the SOW.
Sage: Merge the finalized pull request and generate finalized and filled out Data Sharing Plan for the awardee
NTAP: Sends an award letter to awardee after confirming the SOW and introduces Sage to the awardee. The introductory email includes the following:
Role of Sage and Synapse in data upload as expected for the NTAP award
Expectation of Data Sharing plan to be filled with the tables in SOW and sent to Sage to start the project intake process
Expected embargo end date for data release for the project
Proposal central DOI for the awarded project
Synapse Study Creation/ Project Intake:
Sage: Follows up on the introductory email with information :
Pre-filled data sharing plan for the awardee to sign and upload to the Project Intake Form
Filling out the Project Intake form as described in NF Data Portal’s documentation page
Awardee: Sign the data sharing form and upload it to the Project Intake Form
Sage: Send email to awardee confirming the following
Established Synapse project space with link to access the project
Link to Study page in NF Data Portal
Sets Study Status to “Active”
Uploads the final data sharing plan to the project space in a folder named “Admin”
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