Additional file 7: of Regulatory network changes between cell lines and their tissues of origin

Transcription factors differentially-targeting genes in cell lines and their tissues of origin. (A) Distribution of TF out-degree difference for LCL-vs-blood networks comparison (red) and for fibroblast-vs-skin networks comparison (blue). Positive values indicate higher targeting in cell lines, and negative values indicate higher targeting in tissues. (B) Scatter plots of t-statistic values for TF differential expression (voom) and “differential targeting” (paired t-test to compare the TF out-going edge weights between the cell line and tissue-specific networks) comparing LCL versus blood (left panel); and fibroblasts versus skin (right panel). Red: TFs that achieved significance for differential expression (FDR < 0.05 and absolute log2 fold change >2) and for differential targeting (FDR < 0.05). (PDF 82 kb