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. 2010 Nov 15;5(11):e13984. doi: 10.1371/journal.pone.0013984

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Merico et al.

This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.

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Hierarchical organization of GO gene-set enrichment results for estrogen-treated compared to untreated breast cancer cells at 24 hours of culture. Nodes represent gene-sets and edges represent GO defined relations (Is-a, Part-of, Regulates). Gene-sets that did not pass the enrichment significance threshold are not shown. Nodes are colored according to enrichment results: red represents enrichment in estrogen-treated cells (i.e. up-regulation after estrogen treatment), whereas blue represents enrichment in untreated cells (i.e. down-regulation after estrogen treatment). Color intensity is proportional to enrichment significance. Since conservative thresholds were used to select gene-sets, most of the node colors are intense (corresponding to highly significant gene-sets). Subnetworks (i.e. clusters) are annotated according to the corresponding function. The acronym in brackets represents the specific GO ontology the gene-sets belong to: Molecular Function (MF), Cellular Component (CC), Biological Process (BP). Microtubule cytoskeleton (purple labels) and tRNA processing (green labels) were highlighted to show absence of connections between related gene-sets.