FIGURE 3.

Genome-wide search for direct transcriptional targets of Nelf-b in MEFs. A, verification of the effect of Nelf-b KO on the mRNA levels of several Nelf-b target genes in control, KO, and Nelf-b rescued MEFs. At each locus tested, the 18 S rRNA-normalized level in control cells was set as 1, and the rest samples were expressed as fold change over the control. Results shown were average of two experiments. Error bar, S.E. B, Venn diagram comparing the results from the ChIP-Seq and microarray experiments. Nelf-b regulated, genes whose expression is significantly affected upon Nelf-b deletion in MEFs. Nelf-b bound, genes that contain Nelf-b binding regions within the gene boundary (±10 kb). C, ingenuity pathway analysis of significant molecular functions enriched in Nelf-b-bound and transcriptionally regulated genes.