Regulation of histone H3 by the ubiquitin-conjugating enzyme UBE2K determines neurogenesis of human embryonic stem cells [RNA-Seq]

We find that loss of UBE2K leads to accumulation of histone leading to increase in overall load for epigenetic marks and thus hindering differentiation.Our results provide a novel link between ubiquitination, histone regulation and hESC differentiation into neurons. To test whether UBE2K knockdown also induces enrichment of H3K9me3 marks at specific genes, we performed chromatin immunoprecipitation (ChIP)-sequencing assays of hESCs using an antibody to H3K9me3. Overall design: We performed RNAseq in pluripotent stem cells to examine how changes in Ube2k levels change transcript levels. We have 6 samples in total: 3 replicate H9 ES cells expressing Nt shRNA + 3 replicates of H9 ES cells expressing Ube2k shRNA#1