Extended Data Fig. 2: Differential analysis of RPF and TE between d8 Tex and d4 Tex cells.

(a) Boxplot showing the RNA level (left) and RPF abundance (right) of nuclear-encoded mRNAs (n = 1314, filtered lowly expressed mRNAs with RNA level < 10) and mitochondrial-encoded mRNAs (n = 13) in naïve CD8⁺ T cells, as measured by RNA-seq and RPLace-seq. P-value was calculated with the two-sided Student’s t-tests. (b) Representative IGV tracks showing read coverage of RPLace-seq and RNA-seq in the 3′UTR of Atp5d and Cd3d genes in naïve CD8⁺ T cells. 3′UTR of genes were highlighted with blue background color. (c) GSEA to assess the enrichment of translation-repressed mRNAs in high-translating (high TE) mRNAs or low-translating (low TE) mRNAs in naïve CD8⁺ T cells. Transcripts were ranked based on TE in naïve CD8⁺ T cells. NES, normalized enrichment score. P-value was calculated with the two-sided permutation test.