ENQUIRE automatically reconstructs, expands, and drives enrichment analysis of gene and Mesh co-occurrence networks from context-specific biomedical literature
Fig 4
Node weight distribution of ENQUIRE-derived gene networks correlate with relevance to the input literature corpus.
We defined true and false positives genes according to their presence or absence in a Reactome pathway, whose reference literature was used to retrieve gene mentions via ENQUIRE’s gene normalization and network reconstruction. The statistics shows the aggregated results from 720 Reactome-derived input corpora. The aggregated distributions for true and false positive genes are segmented into quartiles. We defined four ranges of the node score W, indicated by squares, whose colors reflect Pearson standardized residuals resulting from a significant chi-square statistic. The lower chart depicts the enrichment of true positive genes, after pruning ENQUIRE-derived networks based on different values of W. Values are relative to the original proportion of true positives.