Table 3 Functional annotation chart for the gene pathways that were significantly up-regulated by chronic SIV in microglia, as compared to controls. Number of genes, p-value and Benjamini value are presented. Complete data set is provided in Additional file 2: Table S2
Category | Term | Count | P-value | Benjamini |
|---|---|---|---|---|
GOTERM_CC_FAT | Intrinsic to membrane | 25 | 1.20E-02 | 1.60E-01 |
GOTERM_CC_FAT | Integral to membrane | 24 | 1.60E-02 | 1.60E-01 |
KEGG_PATHWAY | Endocytosis | 20 | 7.80E-03 | 1.10E-01 |
SP_PIR_KEYWORDS | Transmembrane | 20 | 8.70E-02 | 8.70E-01 |
GOTERM_BP_FAT | Immune Response | 19 | 2.10E-04 | 2.00E-02 |
KEGG_PATHWAY | Cell adhesion molecules (CAMs) | 19 | 1.00E-03 | 2.00E-02 |
KEGG_PATHWAY | Cytokine-cytokine receptor interaction | 18 | 6.30E-02 | 4.20E-01 |
INTERPRO | Immunoglobulin-like fold | 17 | 2.10E-06 | 2.40E-04 |
KEGG_PATHWAY | Lysosome | 17 | 1.00E-04 | 5.40E-03 |
KEGG_PATHWAY | Natural killer cell mediated cytotoxicity | 17 | 5.30E-04 | 1.20E-02 |
KEGG_PATHWAY | Antigen processing and presentation | 16 | 1.10E-04 | 3.50E-03 |
GOTERM_CC_FAT | Plasma MEMBRANE | 16 | 2.50E-02 | 1.70E-01 |
KEGG_PATHWAY | Viral myocarditis | 15 | 1.70E-03 | 3.00E-02 |
KEGG_PATHWAY | Allograft rejection | 14 | 3.20E-05 | 2.60E-03 |
KEGG_PATHWAY | Autoimmune thyroid disease | 14 | 2.40E-04 | 6.40E-03 |
KEGG_PATHWAY | Graft-versus-host disease | 13 | 2.60E-05 | 4.20E-03 |
KEGG_PATHWAY | Type I diabetes mellitus | 13 | 1.00E-04 | 4.20E-03 |
GOTERM_BP_FAT | Antigen processing and presentation | 10 | 5.20E-05 | 1.40E-02 |
GOTERM_CC_FAT | MHC protein complex | 10 | 5.80E-05 | 2.50E-03 |
GOTERM_CC_FAT | Plasma Membrane Part | 10 | 2.20E-02 | 1.80E-01 |
KEGG_PATHWAY | Colorectal cancer | 10 | 5.80E-02 | 4.20E-01 |
KEGG_PATHWAY | Cytosolic DNA-sensing pathway | 9 | 5.30E-03 | 8.20E-02 |
KEGG_PATHWAY | Fc gamma R-mediated phagocytosis | 9 | 9.80E-02 | 5.50E-01 |
KEGG_PATHWAY | Acute myeloid leukemia | 8 | 2.50E-02 | 2.70E-01 |
KEGG_PATHWAY | Amyotrophic lateral sclerosis (ALS) | 8 | 4.80E-02 | 3.90E-01 |
KEGG_PATHWAY | Intestinal immune network for IgA production | 8 | 4.80E-02 | 3.90E-01 |
GOTERM_CC_FAT | MHC class I protein complex | 7 | 5.80E-04 | 1.20E-02 |
SP_PIR_KEYWORDS | Immune response | 7 | 1.40E-03 | 6.20E-02 |
INTERPRO | Immunoglobulin subtype | 7 | 1.00E-02 | 1.40E-01 |
KEGG_PATHWAY | Amino sugar and nucleotide sugar metabolism | 7 | 2.40E-02 | 2.80E-01 |
GOTERM_BP_FAT | Antigen processing and presentation of peptide antigen via mhc class i | 6 | 7.00E-05 | 9.80E-03 |
INTERPRO | MHC class I-like antigen recognition | 6 | 7.90E-03 | 1.20E-01 |
KEGG_PATHWAY | Primary immunodeficiency | 6 | 3.90E-02 | 3.70E-01 |
KEGG_PATHWAY | Sphingolipid metabolism | 6 | 5.50E-02 | 4.20E-01 |
GOTERM_BP_FAT | Cell death | 5 | 2.60E-02 | 8.40E-01 |
KEGG_PATHWAY | RNA polymerase | 5 | 4.50E-02 | 3.90E-01 |
GOTERM_BP_FAT | Apoptosis | 4 | 9.50E-02 | 9.90E-01 |