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McEnhancer: predicting gene expression via semi supervised assignment of enhancers to target genes

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Figure

Fig. 1 Possible enhancer-gene interaction dynamics and problem definition. a Current understanding of interaction dynamics between enhancersand their target genes: (i) An enhancer can regulate a faraway gene and not necessarily the closest one
Fig. 2 Schematic representation of McEnhancer. Starting with known DHS-gene pairs assigned to a given cluster, it builds a third-order IMM torepresent sequence features in DHSs for the positive cluster (colored red)
Fig. 3 Mapping enhancer candidates from DNase-seq data and baseline classifications. a JAMM-identified peaks for DHSs in stage 14, versus (b)originally processed DHSs in stage 14
Fig. 4 McEnhancer results. a Number of unique distal DHSs used in initialization and after prediction
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