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However, careful examination of the module found that all 13 genes in this module lie in close proximity on chromosome 8, suggesting potential biological relevance of the module.
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In order to compare the functional relevance of the modules found by the different methods we used four annotation databases: (a) GO "biological process" ontology (level 7; 474 categories) [ 29]; (b) GO complexes annotation (subterms of "protein complex" term, 213 complexes); (c) MIPS deletion phenotype annotations [ 30] (181 phenotypes); (d) KEGG molecular pathways (310 pathways) [ 14].
The general relevance of this module was supported by highly significant enrichment of genetic variants identified by all GWAS and cancer studies, as well as known diagnostic and therapeutic targets.
In order to assess the validity and the relevance of the inferred module network, we here present a detailed analysis of three modules, with an emphasis on the typical features of miRNA mediated regulatory modules.
Next, we go on to discuss the biological relevance of these "modules" to the operation of NF κB network.
Additional file 6 is a table describing the relevance of the TG module overlap genes to CHD-related traits.
We also analyzed the physiological relevance of the mouse liver eQTL modules.
To assess the functional relevance of the gene modules, and to make sure that the co-expressed modules reflect biologically relevant information, we next examined whether certain ontology terms were over-represented in the modules.
Previous studies have linked both energy generation and protein translation genes with particular types of cardiomyopathy [ 4, 7], highlighting the relevance of these modules to cardiac disease.
All PDMs included protein families with cellulase or hemicellulase activities, which supports the relevance of these modules for plant biomass degradation.
The MODES isoform modules have significantly higher functional enrichment rate than those of random cases, showing strong biological relevance of the predicted modules.
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