Fig. 4

Protein–protein interaction cannot account for BAFs relocation. A Schematic illustration of Mass Spectrometry after Immunoprecipitation experiments. Three time points 0 h, 8 h and 24 h were utilized to analyze the proteome of JUN and SS18. B Venn plots showing the overlaps of proteins that interact with JUN and SS18 at different time points during PST, respectively. C The scatterplots above showed the pairwise comparison between 8 h or 24 h and 0 h during PST by Flag antibody in JUN-Flag^TetONmESCs with label-free quantification. The proteins of JUN, SS18 and the representative ones interacted with JUN were marked in red, blue, yellow and green respectively. The scatterplots below showed the pairwise comparison between SS18 antibody and IgG isotype control at 8 h and 24 h during PST in Jun-Flag^TetON mESCs with label-free quantification. The proteins of SS18, JUN and the representative ones interacted with SS18 were marked in red, blue and green respectively, P-value = 0.01 and fold change = 2 were used as threshold. Every point represented a single protein. IP-MS experiments were performed in triplicate and a two-sample t-test was applied. D The expression of representative downstream genes of Jun were detected by real-time quantification PCR at 8 h during PST upon the knockdown of the shared three proteins. Data are mean ± s.d., two tailed, unpaired t-test; n = 3 independent experiments, ***P < 0.001