Open sjspielman opened 1 year ago
I'll note that other modules that were reassessed at a tumor purity threshold were broadly consistent with original results that feed into this module, suggesting (but not meaning for sure!) that results might not be strongly influenced.
To assess the affects of tumor purity on our results, we should re-run certain survival models, considering only samples that have
tumor_fraction>= median tumor fraction
(https://github.com/AlexsLemonade/OpenPBTA-analysis/pull/1622).Specifically, we should run the following models and compare results to original results with all tumors:
survival ~ is_lgg + resection + tp53 + extend
survival~CD274 expr + resection + quantiseq_fraction