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One of the reasons is that the functional coherence function computes the similarity of a standardized set of GO terms instead of the aligned proteins directly.
The networks were further investigated to identify functionally-relevant modules that exhibit functional coherence and a consensus motif in the promoter elements indicative of DNA-binding elements.
Although SPI can identify growth inhibitory cDNAs, there is little reason to expect functional coherence within this group since interference with many functions can be detrimental.
The functional coherence index is used to ensure that only functionally related clusters are merged.
Those modules were selected based on their intrinsic interest, functional coherence and the high number of literature references discussing their putative function.
Since modules often show strong functional coherence, the diverse set of annotations provide a complementary overview of module function.
In DFX, GO annotation data is used to ensure functional coherence in each functional family, and clusters are only merged if they contain coherent GO terms.
Genes in many eQTL modules showed significant functional coherence.
We also found significant within-module functional coherence.
To address this issue, we implemented Latent Semantic Indexing (LSI) to determine the functional coherence of gene sets.
Our LPv analysis could be used to estimate the significance of the functional coherence of individual clusters.
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