Date
Attendees
Karen Ketchum, Rajesh, Anand, Henry, John, Paul Rudnick, Michael Holck, Mike MacCoss, Gilberto Fragoso
Agenda
- Data release
- Release of LUAD Acetylome data to coincide with the publication of the two major LUAD studies from CPTAC and Academia Sinica in Cell (July 9)
- Publication details added to Lung cancer studies from CPTAC3 and Academia Sinica (July 13)
- Updates on Scientific committee, next steps
- CPTAC data portal migration discussion
- Next dataset release priorities
- CPTAC3 UCEC Acetylome - ongoing
- CPTAC3 Lung Squamous Cell Carcinoma (LSCC) - proteome, phosphoproteome, acetylome - waiting for data from DCC
- Ongoing work (previous and ongoing sprints) -
- Release acetylome datasets, bug fixes
- Released a data submission template as a spreadsheet workbook
- search bar improvements - text annotation, ordering of results, etc
- release of a data submission template as a spreadsheet workbook
- worked on ability to reuse the previously released biospecimens for new studies
- reorganizing heatmap files, API updates to use the new PDC study identifier (e.g. PDC000nnn)
- Workspace feature enhancements include -
- ability to load annotations during file upload that will help in streamline study creation,
- ability to accept data_source (submiiter or PDC) and embargo_date
- file-set validation based on instrument specific file formats , e.g. Sciex models,
- adding support for Acetylome, etc
- Other minor improvements
- External interactions
- MSFragger webinar - mention of PDC - SBG integration
- SBG talk at next bi weekly call
- Other items
Discussion items
Time | Item | Who | Notes |
---|---|---|---|
LUAD Acetylome data released last week and supports two publications, one of which uses the new IDs for PDC. | |||
Scientific Committee: haven't heard from 2 people, but Mike MacCoss has reached out and internal discussions were held on how to organize the call. Proposing 1.5-2 hr. call. Topics: Data hosting, development efforts, findability, APIs. Short 15 presentations with ~10 min of time for feedback. Looking for feedback on agenda. Paul Rudnick volunteers to do section on CDAP output/APIs. Doodle poll to be sent out for times - targeting early to mid August. | |||
CPTAC data portal migration: discuss where we stand and what steps are needed to make the migration happen. Same presentation as on Monday. |