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Fig. 3 | BMC Bioinformatics

Fig. 3

From: Avoiding the pitfalls of gene set enrichment analysis with SetRank

Fig. 3

Example of a gene set network returned by SetRank. The node fill color reflects the corrected p-value, going from blue to red with decreasing p-value (i.e. increasing significance; see inset, pp denotes the negative logarithm of the p-value). The node border color reflects the SetRank p-value, using the same color coding as the node fill color. Edge thickness reflects the size of the intersection between two gene sets, using the Jaccard similarity. The edge arrows point from the least significant gene set to the more significant one after subtracting the intersection from both of them. A double-line edge indicates a case where the significance of both gene sets was only in the intersection

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