Genetic ImmunoEditing (GIE) score
The Genetic ImmunoEditing (GIE) score was computed by taking the ratio between the number of observed neoantigens (The observed number of neoantigens The expected number of neoantigens We assumed that samples that show a frequency of neoantigens lower than expected (i.e., lower GIE values) have evidence of immunoediting.Since the GIE is a ratio between observed and expected neoantigens, we used “GIE” or “Non-GIE” definitions to nominate samples with GIE < 1 or GIE > 1, respectively. Analogously, we adopted the normalized enrichment score (NES) to evaluate the activation of the ICR signature at the single-sample level using the yaGST tool