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To test whether a group of genes was significantly enriched in one or more functional terms (out of several thousands) with respect to the background (usually the rest of genes), we used the FatiGO algorithm [ 36] from the Babelomics suite [ 37] for functional annotation of sets of genes.
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GO has a hierarchical structure where more general functional terms are located closer to the root, while more specific terms are located closer to leafs.
In conclusion, more functional tests following long-term storage of PBMC in serum-free media, similar designed studies for assays studying other immune cell populations and bridging studies prior to changing HSA batches are mandated.
In other words, the more specific functional terms that reside at higher levels of the tree are replaced with their ancestor terms which are located at level five.
For the line comparison, there were more enriched functional terms in the down-regulated genes than in the up-regulated genes.
The analysis with MCL provided similar results to MCODE for the large clusters mentioned, although it splits the network in more clusters being the smaller ones more coherent in functional terms that the ones found by MCODE.
Therefore, we were able to identify 38% more functional information in terms of GO annotations than currently available in Ensembl for bovine genes.
The first two obvious conclusions are i) co-expression modules are by far more enriched in both functional terms (GO) and network structure than signatures are (82% versus 49%), and ii) both, co-expression modules and signatures are more enriched by functional terms than in network structure.
It is assumed that the Ile103 allele itself (or another variant in tight linkage disequilibrium) leads to a more active MC4R in functional terms [ 21].
This comparison was quantified by a one-sided Wilcoxon rank-sum test, where a significant p-value would indicate that the genes in the MTBs were more enriched in same functional terms than random gene sets.
America's national-level politics are unlikely to become more functional in the near term.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com