Soon Woo Nam

#gene editing Open access Oct 2026

Omitting tumor proliferation from prognostic gene expression models: preregistered analysis code, decision rules and results

R analysis code, preregistered decision rules, result files, run logs and figures for a study of what omitting tumor proliferation does to prognostic gene expression estimates. For every expressed gene in a cohort, two Cox models are fitted for overall survival, one adjusted for age, sex and anatomic extent and one tha...

Soon Woo Nam · Zenodo (CERN European Organi... · 0 citations

#gene editing Open access Sep 2026

Does adjusting for tumor proliferation bias prognostic gene expression estimates? Preregistered analysis code, decision rules and results

R analysis code, preregistered decision rules, result files, run logs and figures for a study of what omitting tumor proliferation does to prognostic gene expression estimates. For every expressed gene in a cohort, two Cox models are fitted for overall survival, one adjusted for age, sex and stage and one that adds a s...

Soon Woo Nam · Zenodo (CERN European Organi... · 0 citations

#gene editing Open access Sep 2026

Does adjustment for tumor proliferation shift prognostic gene expression associations in a way that is predicted by each gene's correlation with proliferation? A confirmatory analysis across cancer types in The Cancer Genome Atlas

1. What is already done, and what this document covers I state this first, because the value of a preregistration written after related work depends on being exact about what was already seen. Three analyses are already complete and are exploratory. None of them was preregistered, and none of them is covered by this do...

Soon Woo Nam · Open Science Framework · 0 citations