To prepare for a research team’s data contribution, there are several steps the Data Curator will perform:

1. MODEL-AD: Onboarding Meeting

Onboarding Meeting Agenda

SUBJECT: MODEL-AD: Onboarding

I am contacting you on behalf of the MODEL-AD Data Coordination Center (DCC) managed by Sage Bionetworks regarding your grant <GRANT_NUMBER>. MODEL-AD consortium members are required to share data according to the agreed-upon grant milestones and the DCC is responsible for managing the data shared among consortium members, and for the public release of data, analyses, and tools through the AD Knowledge Portal.

  1. To get started, PIs and team members must register for a Synapse account.

    1. Register here: https://www.synapse.org/#

    2. Note the Synapse terms of use: https://docs.synapse.org/articles/governance.html

    3. Profiles should include your full name, institution, photo, and a brief bio. See example.

    4. MODEL-AD team access requires that PIs create a Synapse account and submit their username through this form.

  2. Submit the Data Contribution form with your study information. Please email me your grant's data sharing plan, including yearly milestones. Please send this information before our onboarding call so we can clarify any remaining questions and prepare the required infrastructure to securely receive and store your data.

  3. I will send you a Doodle poll to schedule an onboarding call (1 h) to discuss the data you expect to contribute, the timeline of the contribution, and the expectations involved in data transfer and sharing. Please feel free to extend the invitation to any members of your team.

2. Following the Onboarding Meeting

SUBJECT: MODEL-AD Onboarding – Data Submission – Follow-up

Here is an overview of the expected data contributions and timelines for your study:

Please reply to this email with the below information:

  1. A short phrase describing your study, and a study abbreviation 

  2. The name and contact info of a team liaison

  3. Write an acknowledgement statement for your data. 

  4. If you have a manuscript being prepared, please fill out this form detailing the data used in the manuscript so we can begin setting up the infrastructore for the data: https://docs.google.com/forms/d/e/1FAIpQLSeQjHkj72iZuwMzwhmXXwi7fhK4d57skDHwrjC5Kaldr4DHVw/viewform

    1. The NIA requests that AD Knowledge Portal funded partners include a specific data availability statement in manuscripts based on use of data from the portal:

      1. <data, analysis output, tools (describe content)> are available via the AD Knowledge Portal (https://adknowledgeportal.org/). The AD Knowledge Portal is a platform for accessing data, analyses, and tools generated by the Accelerating Medicines Partnership (AMP-AD) Target Discovery Program and other National Institute on Aging (NIA)-supported programs to enable open-science practices and accelerate translational learning. The data, analyses and tools are shared early in the research cycle without a publication embargo on secondary use. Data is available for general research use according to the following requirements for data access and data attribution (https://adknowledgeportal.org/DataAccess/Instructions).
        For access to content described in this manuscript see: <manuscript landing page DOI>

      2. The AD-DCC will provide you with a doi to use in the manuscript as a data reference.

In addition, you will be receiving a second email shortly introducing you to our data sharing process and the Sage Bionetworks Governance Team contacts. In the meantime, here are some community resources that may help you become more involved in your Synapse community:

Here are some ways we can get you involved in the community. Contact Zoe Leanza (zoe.leanza@sagebase.org) for more information on how we can help you:

If you have any questions, please let me know!

 

3. Metadata Validation

SUBJECT: MODEL-AD Metadata Validation

This is the follow-up to the dccvalidator and template training. Here's a summary of what we went over, and some tips/things to look out for when you are creating your metadata.

Documentation:

Please submit these documents through this form. https://www.synapse.org/#!Synapse:syn25051271

Data Submission Process Summary:

  1. You fill out your templates and manifest and validate them in the dccvalidator

  2. Continue to validate your files until there are no more failures (the red section)

    1. This often is a round of collaboration between you, me and our data curator - the validator can be somewhat cryptic about what it's throwing failures about, so email me if you run into problems or questions.

    2. If you want to find any controlled values, for example, a platform, you can use our data dictionary - the main search box is in the upper right hand corner: https://www.synapse.org/#!Synapse:syn20729790

  3. Once the files have passed validation, email me. Our data curator will do some manual curation, and then I'll give you the file location and permission to start the data and metadata upload.

Here is the link to the dccvalidator: https://www.synapse.org/#!Synapse:syn25878247

Here is the link to the templates.https://www.synapse.org/#!Synapse:syn18512044

Please let me know if you have any questions!