Table 3.
Enriched pathway clusters determined by DAVID functional annotation clustering of up- regulated and down-regulated DE genes in CTR vs. LPS in mice liver.
| Annotation Cluster 1: Enrichment Score: 2.67 | |||||
|---|---|---|---|---|---|
| Category | Term | Genes | Count | p-Value | Benjamini |
| KEGG_PATHWAY | Hepatitis C | Kras, Cxcl10, Gsk3b, Raf1 | 4 | 5.90 × 10−5 | 5.60 × 10−3 |
| KEGG_PATHWAY | Chemokine signaling pathway | Kras, Cxcl10, Gsk3b, Raf1 | 4 | 9.20 × 10−5 | 5.60 × 10−3 |
| GOTERM_BP_DIRECT | Signal transduction | Kras, Gsk3b, Pparg, Rras2, Raf1 | 5 | 3.10 × 10−4 | 1.00 × 10−1 |
| KEGG_PATHWAY | Endometrial cancer | Kras, Gsk3b, Raf1 | 3 | 4.00 × 10−4 | 1.40 × 10−2 |
| KEGG_PATHWAY | Prolactin signaling pathway | Kras, Gsk3b, Raf1 | 3 | 6.50 × 10−4 | 1.40 × 10−2 |
| KEGG_PATHWAY | EGFR tyrosine kinase inhibitor resistance | Kras, Gsk3b, Raf1 | 3 | 7.50 × 10−4 | 1.40 × 10−2 |
| KEGG_PATHWAY | B-cell receptor signaling pathway | Kras, Gsk3b, Raf1 | 3 | 7.80 × 10−4 | 1.40 × 10−2 |
| KEGG_PATHWAY | ErbB signaling pathway | Kras, Gsk3b, Raf1 | 3 | 8.40 × 10−4 | 1.40 × 10−2 |
| KEGG_PATHWAY | Colorectal cancer | Kras, Gsk3b, Raf1 | 3 | 9.30 × 10−4 | 1.40 × 10−2 |
| KEGG_PATHWAY | Prostate cancer | Kras, Gsk3b, Raf1 | 3 | 1.20 × 10−3 | 1.40 × 10−2 |
| KEGG_PATHWAY | Melanogenesis | Kras, Gsk3b, Raf1 | 3 | 1.20 × 10−3 | 1.40 × 10−2 |
| KEGG_PATHWAY | T cell receptor signaling pathway | Kras, Gsk3b, Raf1 | 3 | 1.30 × 10−3 | 1.40 × 10−2 |
| KEGG_PATHWAY | Growth hormone synthesis, secretion and action | Kras, Gsk3b, Raf1 | 3 | 1.60 × 10−3 | 1.40 × 10−2 |
| KEGG_PATHWAY | Thyroid hormone signaling pathway | Kras, Gsk3b, Raf1 | 3 | 1.70 × 10−3 | 1.40 × 10−2 |
| KEGG_PATHWAY | Neurotrophin signaling pathway | Kras, Gsk3b, Raf1 | 3 | 1.70 × 10−3 | 1.40 × 10−2 |
| KEGG_PATHWAY | Pathways in cancer | Kras, Gsk3b, Pparg, Raf1 | 4 | 2.00 × 10−3 | 1.40 × 10−2 |
| KEGG_PATHWAY | Insulin signaling pathway | Kras, Gsk3b, Raf1 | 3 | 2.30 × 10−3 | 1.40 × 10−2 |
| KEGG_PATHWAY | Signaling pathways regulating pluripotency of stem cells | Kras, Gsk3b, Raf1 | 3 | 2.30 × 10−3 | 1.40 × 10−2 |
| KEGG_PATHWAY | Breast cancer | Kras, Gsk3b, Raf1 | 3 | 2.60 × 10−3 | 1.40 × 10−2 |
| KEGG_PATHWAY | Gastric cancer | Kras, Gsk3b, Raf1 | 3 | 2.70 × 10−3 | 1.40 × 10−2 |
| KEGG_PATHWAY | mTOR signaling pathway | Kras, Gsk3b, Raf1 | 3 | 2.90 × 10−3 | 1.50 × 10−2 |
| KEGG_PATHWAY | Hepatocellular carcinoma | Kras, Gsk3b, Raf1 | 3 | 3.60 × 10−3 | 1.70 × 10−2 |
| KEGG_PATHWAY | Axon guidance | Kras, Gsk3b, Raf1 | 3 | 3.90 × 10−3 | 1.80 × 10−2 |
| KEGG_PATHWAY | Kaposi sarcoma-associated herpesvirus infection | Kras, Gsk3b, Raf1 | 3 | 5.90 × 10−3 | 2.40 × 10−2 |
| KEGG_PATHWAY | Human cytomegalovirus infection | Kras, Gsk3b, Raf1 | 3 | 7.60 × 10−3 | 2.80 × 10−2 |
| GOTERM_MF_DIRECT | nucleotide binding | Kras, Gsk3b, Rras2, Raf1 | 4 | 1.30 × 10−2 | 5.10 × 10−1 |
| KEGG_PATHWAY | PI3K-Akt signaling pathway | Kras, Gsk3b, Raf1 | 3 | 1.50 × 10−2 | 5.00 × 10−2 |
| KEGG_PATHWAY | Human papillomavirus infection | Kras, Gsk3b, Raf1 | 3 | 1.50 × 10−2 | 5.00 × 10−2 |
| KEGG_PATHWAY | Alzheimer’s disease | Kras, Gsk3b, Raf1 | 3 | 1.70 × 10−2 | 5.50 × 10−2 |
| KEGG_PATHWAY | Pathways of neurodegeneration—multiple diseases | Kras, Gsk3b, Raf1 | 3 | 2.50 × 10−2 | 7.50 × 10−2 |
| GOTERM_MF_DIRECT | protein binding | Kras, Gsk3b, Pparg, Rras2, Raf1 | 5 | 6.30 × 10−2 | 8.70 × 10−1 |
Category: original database/resource where the terms originate; Term: enriched terms associated with our gene list; Count: genes involved in the term; p-value: Benjamini adjusted p- value. GOTERM: Gene Ontology Term; BP: biological process; MF: molecular function.