This could be explained by the routine supplementary of differentiation inhibitors in the culture medium.
Intriguingly, p63 binding sites were also identified in the vicinity of 80 pri-miRNAs of the 130 pri-miRNAs that are differentially regulated during keratinocyte differentiation (Supplementary Fig S3A; Supplementary Table S4B).
Examining the RNAPII occupancy at annotated miRNA genes using K-means clustering analysis showed dynamically regulated expression of 103 primary miRNA (pri-miRNA) transcripts during differentiation (Supplementary Fig S3A; Supplementary Table S4A) [ 29].
The same analysis of genes that are upregulated upon TAL1 KD in Jurkat cells identified categories related to apoptosis, negative regulation of growth and T-cell differentiation (Supplementary Figure S3B; Supplementary Table II).
Data mining of the lists of genes associated with high miR-206 expression in fusion-negative patients performed using Gene Ontology and Ingenuity Software clearly showed strong correlates to genes associated with muscle differentiation (Supplementary Table 7 and supplementary Figure 2).
The analysis based on the biological processes showed a differential distribution of the A/ S ratios in genes involved in metabolism (carbohydrate metabolism, lipid metabolism, and secondary metabolism) and development (growth, reproduction, and differentiation) (supplementary fig. S2 b, Supplementary Material online).
Interestingly, we observed that BMSC-CM only stimulated proliferation of PC12 cells, and did not promote neural differentiation (Supplementary Figure 5(a)) when compared with DPC-CM (Supplementary Figure 5(b)).
Although HSR-GBM1 cells reduced expression of multipotent genes by 28 days of differentiation (Supplementary Figures S1A C), they did not sustain increased GFAP expression (Supplementary Figure S1D).
rok RNAi expression alone did not substantially alter clone size or photoreceptor differentiation (supplementary material Fig. S7A-Aii,B-Bii), although produced minor cell morphology defects (arrows, supplementary material Fig. S7Aiii,Aiv).
PSA-NCAM and doublecortin (DCX) are markers of migrating neurons [31], [32], whereas NeuN is a marker of mature neurons [33], and stathmin1 was co-localized with these markers of neuronal differentiation (supplementary Fig. S2).
