Fig. 4: SNAI2 binds key enhancers in FN-RMS. | Nature Communications

Fig. 4: SNAI2 binds key enhancers in FN-RMS.

From: Interaction between SNAI2 and MYOD enhances oncogenesis and suppresses differentiation in Fusion Negative Rhabdomyosarcoma

Fig. 4

a ChIP-seq signal for SNAI2 and H3K27ac peaks shared in all three cell lines are shown. b Hypergeometric Optimization of Motif EnRichment (HOMER) analysis identified SNAI2 binding motifs (top) as well as bHLH (basic helix-loop-helix) motifs at SNAI2 shared peaks using the HOMER package (homer.salk.edu/homer/ngs/peakMotifs.html). p statistic is calculated using the HOMER statistical comparison against size matched DNA sequences from randomly selected background genomic sequences. c Chromatin states in SMS-CTR cells (left) and abundance of SNAI2 peaks per Gb of each state (right). d Venn diagram (left) and average plot for ChIP-seq signal (right) depicting overlap between SNAI2 (2 or all 3 cell lines) and MYOD (2 cell lines) binding sites. RPM, Reads Per Million Mapped Reads. e Co-occupancy of MYOD and SNAI2 as measured by ChIP-reChIP and qPCR at locations previously identified (by ChIP-seq) as being preferentially bound by MYOD, SNAI2, or both. Single-target ChIP-qPCR controls are shown below (n = 2 biologically independent experiments, data presented as mean values).

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