Framework for developing three types of miRNA functional enrichment measures. A conceptual framework is constructed to consider the tri-partite network topology. (A) A miRNA cluster under investigation contains the members, μi and μj, targeting genes that are associated (ρi) and not associated (ρj) with a specific GO term of interest through τi and τj, respectively. Non-member miRNAs may be associated (μk→ρk) or not (μl→ρl) with the GO term through τk and τl. Counts for (D) miRNA-centric (μ) and (C) target link-centric (τ) as well as (B) target gene-centric (ρ) are listed by two-by-two contingency tables. The closed and broken circles in the miRNA world depict the miRNA cluster under investigation and the subset miRNAs targeting the genes that are associated with a specific GO term of interest.
Lee et al. BMC Genomics 2012 13(Suppl 7):S17 doi:10.1186/1471-2164-13-S7-S17