As in Rosenthal et al.30, we evaluated immune cell infiltration based on the expression of predefined gene lists for 14 different immune cell populations76 (for CD4+ T cells77). Gene lists can be found in Supplementary Table 7. A score for each cell type was calculated as the mean expression of all marker genes associated with the given cell type, and a total immune score was defined as the sum of all immune cell type scores.

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