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Gene ontology (GO) enrichment tests have revealed gene categories belonging to several biological processes were enriched among the negatively selected genes (Additional file 8).
Biological processes were enriched from significantly regulated transcripts (based on Gene Ontology (GO) terms) and then grouped into categories and subcategories of associated cellular function based on GO ancestor charts (http://geneontology.org).org
No biological processes were enriched among the 95 genes.
Fifteen biological processes were enriched by TB exposure (Fisher's Exact test, p < 0.05).
Fifteen gene ontology biological processes were enriched by TB exposure (Fisher's Exact Test, p < 0.05).
Although we used a very strict cutoff (P = 1 × 10-5), we found that many biological processes were enriched in up-regulated genes of LI and SI.
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Response networks are typically interpreted by computing which biological processes are enriched in them.
As an example of the strong resemblance in transcriptional system regulation between human and mouse, Figure 4 shows that identical biological processes are enriched and similarly controlled in one direction (human TSR1 vs. mouse TSR2).
GOrilla uses hypergeometric statistics to determine whether particular biological processes are enriched within any ranked input set of genes.
Recently, Yu et al. showed that a common set of biological processes is enriched among these gene signatures even when defined by different genes.
For example, the most pathogenic biological processes are enriched in terms associated with protein localization, cell proliferation and tissue development, all aspects related to disease and particularly cancers.
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