Figure 1
From: Patterns of diverse gene functions in genomic neighborhoods predict gene function and phenotype
Enrichment of diverse gene functions is widespread in genomic neighborhoods. (a) Distribution of neighborhood enrichment scores (log odds ratio, log OR) for all pairs of GO functions on original and randomized genomes of prokaryotes, fungi and metazoa. See also Supplementary 1, Figures S8, S11, S12 and Supplementary 1, Table S3. Pairs with OR = 0 are not shown on graphs (see Methods; these pairs result in artefactually high or low log OR values after continuity correction). Information about the statistical significance of difference in distribution shape between observed and randomized distribution is expressed by the Kolmogorov-Smirnov D statistic and the corresponding p-value. (b) Number of GO terms that are semantically distant, but significantly enriched in genomic neighborhoods (FDR ≤ 10%) of each GO term, summarized in histograms for prokaryotes, fungi and metazoa. GO term pairs with Resnik similarity <1 (for prokaryotes) and RS < 2 (for eukaryotes) from the ‘biological process’ GO sub-ontology are tallied in the figure.
