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Add in MPNST PDX Data #146

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sgosline opened this issue Apr 11, 2024 · 4 comments · Fixed by #251
Closed

Add in MPNST PDX Data #146

sgosline opened this issue Apr 11, 2024 · 4 comments · Fixed by #251
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new data Request for additional data to be added

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There is PDX data, though no RNASeq, availalbe from Orcestra.ca: https://www.orcestra.ca/xevaset/10.5281/zenodo.4302463

Is it useful to have pdx data that is not sequencing?
@sgosline sgosline added the new data Request for additional data to be added label Apr 11, 2024
@sgosline sgosline moved this to Backlog in CoderData Apr 18, 2024
@sgosline sgosline self-assigned this Apr 18, 2024
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sgosline commented May 3, 2024

Xeva schema is pretty basic, will work toward what PDXNet is doing.

@sgosline sgosline moved this from Backlog to In progress in CoderData May 3, 2024
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sgosline commented May 3, 2024

What tools are avaialble for processing? AFAIK its just XEVA but a more generic (or python-based) tool would be helpful

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sgosline commented May 3, 2024 •
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Adding this: https://www.science.org/doi/full/10.1126/scitranslmed.abf4969
and this: https://codeocean.com/capsule/2817911/tree/v2

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sgosline commented Jul 9, 2024

Requires creating a new drug processing script

@sgosline sgosline changed the title consider adding PDX data Add in MPNST PDX Data Jul 9, 2024
@sgosline sgosline mentioned this issue Nov 22, 2024
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@sgosline sgosline moved this from In progress to In review in CoderData Nov 22, 2024
@github-project-automation github-project-automation bot moved this from In review to Done in CoderData Dec 6, 2024
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new data Request for additional data to be added
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MPNST sample updates AND PDX code addition PNNL-CompBio/coderdata
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