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Import Novartis/CDPM PDX data into Coderdata #335

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sgosline opened this issue Mar 25, 2025 · 0 comments
Open

Import Novartis/CDPM PDX data into Coderdata #335

sgosline opened this issue Mar 25, 2025 · 0 comments
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The Novartis 2015 PDX dataset has been collated at the Dana Farber here:
https://www.dana-farber.org/research/integrative-research/patient-derived-models/solid-tumor-pdx-models

sample file is here: https://docs.google.com/spreadsheets/d/1xhfev3AhSZeJOjVp_icfhdhe49ktX517l5fhTQl66nE/edit?gid=0#gid=0
The mutational data, rnaseq, and copy number are here (from paper): https://static-content.springer.com/esm/art%3A10.1038%2Fnm.3954/MediaObjects/41591_2015_BFnm3954_MOESM10_ESM.xlsx

The copy number is also here: https://drive.google.com/file/d/1TKM8U0s37AIRJyjDLA423PFHOx_g1y1Q/view
The drug response data is here: https://docs.google.com/spreadsheets/d/1KDYLlnTRXqtfqDMML2Pb0WT3Ch9kxtdRCg813lzvXfI/edit?gid=510688933#gid=510688933

There is additional data on cBioPortal but it is locked down, so let's see if this is enought o characterize the samples. if not we can get more.

@sgosline sgosline added the new data Request for additional data to be added label Mar 25, 2025
@sgosline sgosline self-assigned this Mar 25, 2025
@alexandriai168 alexandriai168 self-assigned this Apr 22, 2025
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