Fig. 3: Schematic representation of different types of network paths found in the EPINs reconstructed by PENGUIN. | Nature Communications

Fig. 3: Schematic representation of different types of network paths found in the EPINs reconstructed by PENGUIN.

From: The PENGUIN approach to reconstruct protein interactions at enhancer-promoter regions and its application to prostate cancer

Fig. 3: Schematic representation of different types of network paths found in the EPINs reconstructed by PENGUIN.The alternative text for this image may have been generated using AI.

In general, a network path is defined by an intermediate protein (gray circle), encoded by a gene (dark red line; GeneA), that interacts with DBPs (orange circles) with binding motifs (orange lines) on the enhancer (green line) and the promoter (red line) of another gene (dark red line; GeneB) (A). If a PrCa SNP (asterisk) falls in the enhancer binding motif, the interaction between the DBP and the enhancer may be disrupted and possibly its interactions (B). If a PrCa SNP (asterisk) falls in the gene that encodes for the intermediate protein, the gene product could be affected and possibly its interactions (C). Colors are consistent with Fig. 1.

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