A PD-1T signature as clinical applicable biomarker in NSCLC 137 4 prediction model including only the PDCD1 gene was built using logistic regression with samples from the NKI-AVL training cohort. All prediction models aimed to predict DC 12m and therefore the reference category used in the logistic regression was PD. Signature probability scores are provided in Supplementary Table S1. Receiver operating characteristic (ROC) curves were produced for each prediction model using the package pROC 1.18.0. The Area Under the ROC Curves (AUCs) were compared using the DeLong test with the pROC 1.18.0 R package. Genes in the TIS are normalized using a ratio of the expression value to the geometric mean of the housekeeper genes that are used only for the TIS. This is then followed by a log2 transformation. The TIS score was calculated in the NKI-AVL validation cohort (n=21) as a weighted linear combination of the 18 gene expression values11,15. This analysis was performed by Nanostring as part of their intellectual property. For the 37 samples in the CERTIM cohort, TIS scores have been reported before13. TIS scores of 42 samples were used for analysis and are provided in Supplementary Table S1.
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