Pathway enrichment analysis

SC Sukrutha Chettimada
DL David R. Lorenz
VM Vikas Misra
SW Steven M. Wolinsky
DG Dana Gabuzda
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Functional enrichment analysis of miRNA-target genes was performed with REACTOME pathways using the ClueGO v2.5.5 [65] plugin of Cytoscape 3.7.2. To identify enriched pathways in the REACTOME database, we used two-sided (enrichment/depletion) tests based on hyper-geometric distribution. Pathways with p ≤ 0.05 were selected and Benjamini-Hochberg adjustment was used to correct p-values for terms and groups created by ClueGO. Kappa score threshold was set to 0.6; GO tree interval was 3–8; Leading Group was selected by ‘highest significance’; % of Group Merge was 50.

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