We currently only use attributes derived from InterPro domains, although we intend to expand our attribute sets in the near future to include, for example, gene attributes defined by mSigDB (16). Also, attributes are not currently selected by default; users must open the advanced options panel to select them. Because of the large number of possible attributes (and the resulting large number of corresponding networks), GeneMANIA only considers attributes represented in the query list (or query gene) and then only the top N ‘most enriched’ attributes in the query list (where N = 20 by default but it can be changed in the advanced options panel). Enrichment is measured by hypergeometric P-value.
