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Date

Attendees


Goals

  • Review, discuss and prioritize ICDC study submission proposals

Previous Action items

Discussion items

ItemWhoNotes
New Data Submission Kuffel, Gina (NIH/NCI) [C]
  • 15 TB Pancreatic Cancer 
Study Updates

 Musk, Philip (NIH/NCI) [C]

  • UBC01- embargo to be lifted as soon as manuscript is released on Molec Cancer Ther website
  • UBC02- embargo has been removed
  • COTC022- from Amy LeBlanc's group. This study is now onboarded. Study and dog records have been created.
  • MGT01- fully onboarded to dev environment
Feature Updates

Kuffel, Gina (NIH/NCI) [C]

  • Sample profile widget to illustrate sample 
Material Transfer Agreement (MTA)Kuffel, Gina (NIH/NCI) [C]
  • Intended to serve as a mechanism for reimbursement for the cost of preparing and submitting data
RNA-Seq broad normalization
  • Carry over to next meeting. Need full team for productive discussion.

Minutes (Not Verbatim)

MB- The data for the Pan Can study is publicly available from SRA. 

PM- Even if it ends up under one study, might be best to separate into disease chunks. A study of this size has inherent complexity, may not be able to get all annotations. Working with original data generators will not necessarily be possible and may have an impact of overall fidelity of the data. Middle ground solution: good use case; get the data into an organized repository for downstream analysis, idea of having a place in ICDC for publications that come downstream of raw ICDC data. This would create a library of publications spawned by analysis and reanalysis of data originating from ICDC.

EK- Shaying provides harmonized BAM files, should we at least make that available as a Pan-Can reanalysis result.  

WK- There is a value in the harmonized data and separating the analytical pipeline she has put together from the data or the results. 

EK- For ICDC we want to make available useful tools, maybe we can make the pipeline available on one of the cloud resources. Need to work our details, how to make supplementary files available to the community.

WK- Need to coordinate with Best Practices group.

EK- Compare code/pipeline available in GitHub. 

MB- Much of the data generated is not validated, need to validate that the variants exist. If we have availability to put pipelines out there for people to assess, it would help encourage community members to evaluate.

WK- This will help to support validation. Perhaps a Kaggle competition for validation. 

MB- This will give Toby leverage for renewal if we are not just a data storage repository. The more we can show that ICDC is a needed community resource is a benefit to the NCI.


Figure 1: New sample profile widget.

Action items