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Add PDO data from pancreatic patients (~70) #106

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sgosline opened this issue Feb 27, 2024 · 3 comments · May be fixed by #280
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Add PDO data from pancreatic patients (~70) #106

sgosline opened this issue Feb 27, 2024 · 3 comments · May be fixed by #280
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new data Request for additional data to be added

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@sgosline
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paper is here: https://aacrjournals.org/cancerdiscovery/article/8/9/1112/10165/Organoid-Profiling-Identifies-Common-Responders-to
@sgosline sgosline added the new data Request for additional data to be added label Feb 27, 2024
@sgosline sgosline self-assigned this Feb 27, 2024
@sgosline sgosline moved this to Backlog in CoderData Jul 9, 2024
@sgosline sgosline moved this from Backlog to Ready in CoderData Nov 22, 2024
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Emailed authors on Nov 22, see if they reply.

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Update: found it on the GDC: https://portal.gdc.cancer.gov/projects/ORGANOID-PANCREATIC

@sgosline sgosline moved this from Ready to In progress in CoderData Nov 27, 2024
sgosline added a commit that referenced this issue Nov 27, 2024
@sgosline
Added ability to pull pancpdo samples from GDC
982395e 
Opening branch as part of fix for #106
At the moment still missing drug/experimental data
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Currently tracking this in https://github.com/PNNL-CompBio/coderdata/tree/panc_pdo
Still waiting on mutation data access and data to use to recalculate AUC values

@sgosline sgosline linked a pull request Dec 24, 2024 that will close this issue
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new data Request for additional data to be added
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Addition of pancreaticPDO dataset. PNNL-CompBio/coderdata
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@sgosline