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Fig. 3 | BMC Bioinformatics

Fig. 3

From: fcScan: a versatile tool to cluster combinations of sites using genomic coordinates

Fig. 3

fcScan identified CTCF clusters delimiting the shh/ZRS TAD in Forward and Reverse nomenclatures. Genome browser view showing tracks of CTCF ChIP-seq on K562 and GM12878, SMC3 ChIP-seq on K562, CTCF PWM hits in forward (blue) and reverse (red), Hi-C based TADs in K562 and fcScan identified CTCF clusters for forward (blue) and reverse (red) CTCF sites. The last track shows the gene models with shh gene highlighted in red. CTCF PWM for forward and reverse orientations are shown below. COSMIC data track was omitted for clarity. The function call used to identify the clusters is shown on top and was run independently for CTCF PWM based binding sites on positive (the call showed) and negative strands

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