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Fig. 1 | BMC Genomics

Fig. 1

From: Transcriptomic dynamics of breast cancer progression in the MMTV-PyMT mouse model

Fig. 1

Differentially expressed genes along tumor progression. a PCA of PyMT and FVB samples. It shows the separation between tumor and control samples. b Biological and technical confounders’ contribution to PCs. The heatmap shows –log10 p-value of linear regression of top PCs on some known covariates. Red indicates significant correlation. The disease status, whether it is tumor or control, contributes most significantly to PC1 and PC2. No technical covariates exhibited correlation to any PCs. Plotted with the ggplot2 R package [80]. c Venn diagram of DEGs. A majority of the DEGs at each one of the four time points were also detected in at least one another time point. d Mean expression of 79 E2F-targeted DEGs at four stages. The red line denotes PyMT tumors, and the blue line controls. The normalized gene counts were plotted with the error bar showing the standard deviation. 79 targets were differentially expressed in late carcinoma stage (week 12). H, hyperplasia; N, adenoma/MIN; EC, early carcinoma; and LC, late carcinoma

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