Analysis of transcriptomic profiles of Trim71 KO, Lin28a KO and double KO ESCs reveals a common signature of let-7 targets down-regulation. (A) Schematic representation of the workflow for the transcriptomic analysis of ESCs. (B) Principal component analysis (PCA) showing individual sequencing experiments for each genotype (n = 4–5). (C) Hierarchical clustering of the 10,000 most variable genes among the different ESC lines. (D) Coexpression network analysis (CoCena) for the transcriptomes of the different ESC lines. Modules with commonly down-regulated genes among all KO ESC lines are marked with a yellow asterisk and were used for E. (E) miRNA network showing targets for the different let-7 family members found in modules C and E (marked with a yellow asterisk in D). See also Supplemental Figures 5, 6 and Supplemental Table 1.
