Exact(7)
The Ingenuity software makes use of its own two databases, Top Bio Function and Top Canonical Pathways, which however are comparable with the GO and the KEGG databases, respectively, used by the other enrichment tools.
The results for the Bio Function categories were too unspecific, due to the large number of enriched categories reported for each of the three gene lists (61 to 77 enriched terms) (Table 2).
#mol number of molecules included in the indicated Bio function or disease.
Ingenuity pathway analysis was used to determine the top 5 bio function categories, canonical pathways, and upstream regulators.
"Canonical pathways" and "Disease and Bio Function" analyses were performed using Ingenuity Pathway Analysis IPAA) software (www.ingenuity.com/products/ipa).com/products/ipa
The functions annotation p-value range represents the range of p-values for the functions annotations associated with each bio function category.
Similar(53)
These are strongly overlapping bio functions and a number of differentially expressed genes were common to two or more categories.
Among the 300 macrophage genes undergoing expression variation upon LPS stimulation, the pathway analysis knowledge database has revealed that 178 gene products could be defined as "Top Bio Functions" thanks to their score (data not shown).
Selected Bio Functions related to bone.
Further, Bio Functions analysis identified inflammation, cell dynamics, and/or cell trafficking-related functions as the Top Bio Functions (Table 1).
The top bio functions in IPA are shown in Figure 6.
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