Join the PGC
To join the PGC, the first way is to join a group that is already part of the PGC at your institution or in your professional network. The second way is to share GWAS data on cases and controls for one of the PGC disorders. Each group makes its own determination on the minimum number of samples an individual or organization can contribute. The best approach is to contact the working group chair to find out the group’s policies about sample size contributions.
Contributing Your Data To The PGC
By community request, the PGC Coordinating Committee, Data Access Committee, and representatives from each workgroup have worked together to develop a protocol and online system to welcome new PGC collaborators and streamline the entry of new data into the PGC.
The goals of this system are to:
- create a transparent and efficient platform to grow this remarkable collaboration,
- expedite the addition of new PGC datasets, and
- systematize the upfront collection of meta-data to facilitate subsequent manuscript preparations.
Ms. Lea Davis serves as the PGC Data Intake Officer (DIO). The DIO is a member of the DAC and works closely with each PGC workgroup to help orient new members to the structure of the PGC and facilitate the deposition of new datasets.
To accomplish the goals set forth by the PGC community, we have created a two-phase protocol for new members including an “Inquiry Phase” and an “Intake Phase”.
Inquiry Phase (~5 min):
You will be asked to provide a few key pieces of information that will help the PGC workgroup determine whether your data can be utilized. On rare occasions, there may be datasets that can not be included in a PGC analysis. The inquiry phase is designed to identify those datasets before you spend a significant amount of time during the intake process. The inquiry form can be found here.
Intake Phase (~25-30 min):
During this phase you will be asked to provide more details about the datasets you are sharing including information about the composition of the sample, any data sharing restrictions, and summary information that is often required for manuscript preparation. If you have questions at any time, you may contact the DIO for help. The intake form can be found here.
Please review the workflow below, which breaks down the steps embedded into each phase:
Upload GWAS Data
This PDF provides a detailed technical description of how to upload GWAS data for inclusion in PGC analyses.
Upload Intensity Files
The PGC CNV analysis group has built a pipeline for the integrated processing of raw intensity data. As these files are relatively large, “uploading” requires sending a hard drive containing intensity file data to the Netherlands. Contact the CNV workgroup for details.