Additional file 6.

KEGG pathways and GO (biological process) categories that were over-represented in the TNBS-treated ileum. KEGG pathways and GO (biological process) categories that were over-represented in the TNBS-treated ileum are represented with their MAPP Name (KEGG pathway name), Z score (z-score), AdjustedP (adjusted permutation p-value calculated using the Benjamini-Hochberg method)), gene symbols, AVG-logFC (average log2FC for each enriched term calculated based on associated differential genes) and AVG-adj.P. Val (average adjusted p-value for each enriched term calculated based on associated differential genes, GOID (Gene ontology ID), GO Name (name of GO category). Threshold criteria for over-representation: z-score > 2, at least three genes from the input list in the enriched category, an adjusted permutation p-value ≤ 0.35. Top-scoring functional category groups for KEGG pathway and GO categories are shown in colour as follows: Cytokine-cytokine receptor interaction pathway and inflammatory, immune response category group. Intestinal immune network for IgA production pathway and immune response category group. Antigen processing and presentation pathway and antigen processing and presentation category group. Cell adhesion molecules pathway and cell adhesion category group. Toll-like receptor signaling pathway and immune and inflammatory response category group. ABC transporters pathway and response to chemical stimulus category group. (Note: Although immune, inflammatory response categories are common to more than one category group, they are coloured only once).

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Avula et al. BMC Genomics 2012 13:377   doi:10.1186/1471-2164-13-377