Fig 5

p53-responsiveness of target genes associated with predicted functional REs. a qPCR results of 13 selected genes. Fold of changes values (∆∆Cq) upon each treatment are presented as a heatmap. Upper part shows mRNAs level after Nutlin-3A treatment while the lower shows the same after Doxorubicin (Doxo) treatment. Expression levels were tested in different cell lines (MCF7, HCT +/+, HCT −/−, MCF7 vector and MCF7 shp53) and at different time points (8, 16 and 24 h) (Details are presented in Additional file 7). For each gene, the “Grade” column presents the binding site grade reported by our algorithm. “ChIPseq” column shows the presence (+) or absence (−) of reported p53 binding sites [8]. “Doxo” column presents mRNA levels obtained by microarray data [49]. b Positional representation of p53 binding sites in TSS proximity for DICER, YAP1, DNAJA1, MAP2K3. Bar height is proportional to the binding site grade. Grade 5 is yellow, grade 4 is red, grade 3 is green, grade 2 is blue and grade 1 is grey. c p53 occupancy on the promoter of DICER, YAP1, DNAJA1 and MAP2K3 comparing Mock and Doxo condition in MCF7 cells. P21, well-known p53 direct target, is a positive control. ACTB is used as a reference. Sites validated by ChIP are indicated by a * symbol in Figure 5b