Extended Data Fig. 3: The enrichment of ELL3 is not affected after Tet1 or Sin3a KD. | Nature Cell Biology

Extended Data Fig. 3: The enrichment of ELL3 is not affected after Tet1 or Sin3a KD.

From: Young LINE-1 transposon 5′ UTRs marked by elongation factor ELL3 function as enhancers to regulate naïve pluripotency in embryonic stem cells

Extended Data Fig. 3

a, Correlation plot matrix showing the enrichment of ELL3 and the previously identified LINE-1 regulators at the genome wide scale. Uniquely mapped reads were used for the analysis. b, Pie chart showing the percentage of the TET1 repeat element peaks overlapping with retrotransposons including L1Md_T and L1Md_Gf. c, Heat maps showing CDK9 and AFF4 ChIP-seq profiles in mESCs at the ELL3 bound L1Md_Ts, L1Md_Gfs and non-REs, and the TET1 bound L1Md_As. Shown are ± 5 kb of the center of ELL3 or TET1 peaks. b,c, Multi-mapped reads were used for the analysis. d, ChIP-qPCR showing that the levels of ELL3 remains unchanged at L1Md_T after Sin3a or Tet1 KD. Hemo serves as a negative control for ChIP-qPCR. e, MeDIP-qPCR showing the 5mC levels remain unchanged at the examined regions after Ell3 KO. d,e, Data are the mean ± SEM from 3 independent experiments. Two-tailed unpaired Student’s t-test was performed. Source numerical data are available in source data.

Source data

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