Fig. 3.

Genome-wide binding of CBFB and hnRNPK to mRNAs. RIPseq of FLAG-CBFB (a) and hnRNPK (b) in MCF10A cells. Shown are mean adjusted FPKM + 1 (log2). Red dots show the transcripts that are enriched in FLAG-CBFB RIP more than 4-fold. The rest transcripts are shown as blue dots. c A Venn diagram showing transcripts bound by both CBFB and hnRNPK. d Validation of binding of CBFB and hnRNPK to 16 selected transcripts using RIP followed by real-time PCR. Error bars are SEM, n = 3 (biological). e The top-ranked gapped motif, which was represented in 86% of the hnRNPK binding sites occurred in hnRNPK-bound transcripts