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Table 3 An immune-related subset of enriched GO terms of pIC-responsive transcripts (overlap between SAM and RP analyses) within each dietary group

From: Transcriptome profiling of antiviral immune and dietary fatty acid dependent responses of Atlantic salmon macrophage-like cells

GO ID GO Terma Categoryb Number of probes with GOc Over/Under
Test FO7 Test FO5  
GO:0004950 chemokine receptor activity F 8 8 OVER
GO:0004896 cytokine receptor activity F 11 14 OVER
GO:0071345 cellular response to cytokine stimulus P 37 43 OVER
GO:0070098 chemokine-mediated signaling pathway P 9 9 OVER
GO:0034097 response to cytokine P 40 50 OVER
GO:0045647 negative regulation of erythrocyte differentiation P 5 5 OVER
GO:0030219 megakaryocyte differentiation P 9 9 OVER
GO:0035666 TRIF-dependent toll-like receptor signaling pathway P 8 8 OVER
GO:0002756 MyD88-independent toll-like receptor signaling pathway P 8 8 OVER
GO:0006954 inflammatory response P 25 29 OVER
GO:0034138 toll-like receptor 3 signaling pathway P 8 8 OVER
GO:0002250 adaptive immune response P 15 16 OVER
GO:0019221 cytokine-mediated signaling pathway P 24 27 OVER
GO:0032480 negative regulation of type I interferon production P 6 6 OVER
  1. aThis subset of enriched GO terms associated with immune responses was selected using Ancestor Chart feature of the QuickGO website (http://www.ebi.ac.uk/QuickGO). The full list of enriched GO terms is presented in Additional file 7: Table S4
  2. bF: Molecular Function and P: Biological Process
  3. cNumbers of probes annotated with each GO term in pIC-responsive gene list overlapping between SAM and RP of each dietary group. Bold numbers indicate a significant over-representation (Fisher’s exact test, FDR < 0.05) in the pIC-responsive gene list of the given dietary treatment, compared to the whole 44K salmon microarray. Total number of probes annotated with at least 1 GO term was 666 and 865 for FO7 and FO5 groups, respectively