2020-04-22 PDC Weekly Meeting notes

Date

22 Apr 2020

Attendees

• Beyers, Matthew (NIH/NCI) [C]

Agenda

• Data Release
• Korea gastric cancer dataset released - 04-16-2020
• Announced through PDC mailing list - listserv
• Release notes posted
• Ongoing work  
• Simplified study identifiers and external references
• Format: PDC000001
• Accessible via url 
• Search by id (both external and internal)
• Old: https://pdc.cancer.gov/pdc/study/be2883cb-57b8-11e8-b07a-00a098d917f8
• New: https://pdc.cancer.gov/pdc/study/PDC000001
• • • 

• • Support
  • Clustergram tutorial video
  • Portal and workspace related improvements  
  • Workspace usability improvement 
  • Ability to add labels/annotations to files during upload time, that can later be used in the study creation
  • Evaluate the new PRIDE format - Sample and Data Relationship Format (SDRF) -  https://github.com/bigbio/proteomics-metadata-standard/tree/master/annotated-projects
• Next data sets / releases in pipeline
• Korea Gastric Cancer (April) Released
• HNSCC from CPTAC3  (May)
• GDC and TCIA linking
• Study description
• Lung Cancer dataset of Academia Sinica - from ICPC, MacCoss - (Late May to early June)  
• Initial review of the metadata done
• LSCC from CPTAC3 (July)
• PDA from CPTAC3
• APOLLO
• Georgetown lung dataset
• Other items
• PDC Advisory committee
• ASMS and AACR virtual conferences
• NIH Workshop on Cloud based interoperability 
• External interactions
• SevenBridges + Univ of Michigan - Philosopher integration with SBG
• ISB-CGC - providing protein quant data through APIs
• PRIDE SDRF format 
• CCDH
• Sam Payne
• NCI Updates

Discussion items

Action items

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