Fig. 3

Degradation index (DI) scores show gene-/sample-/condition-specific degradation heterogeneity. a–f Box plots of DI scores presented in a between-group comparison defined for the differential expression analysis as follows. a SEQC-AA data (16,670 genes): the 8 (1–8) technical replicates from the first run vs. the 8 (9–16) from the second run. b SEQC-AB data (19,061 genes): 4 biological replicates from A condition vs. 4 from B condition. c PBMC data for subject S01 (14,051 genes): 2 samples exposed at room temperature for 0 and 12 h (S01_T1 and S01_T2) vs. 2 for 24 and 48 h (S01_T3 and S01_T4), respectively. d GBM data (14,298 genes): 3 replicates each for RIN number = 10, 6, and 4, respectively. e DLPFC data for subject Br1729 from Ribo-Zero-seq (18,634 genes): 2 samples exposed to room temperature for 0 and 15 min (T0, T15) vs. 2 for 30 and 60 min (T30, T60). f Breast tumor data of 3 matched pair (T1, T2, T3) prepared from FF and FFPE methods, respectively (10,996 genes). g–l For each data set presented in a–f, the heatmap presents the DI scores of genes sorted in the ascending order of the average DI score of the first condition (in the GBM case, the R10 samples), where each row corresponds to the same gene across samples