Skip to main content

Table 4 Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis of murine diaphragms at 5 time points

From: Time-resolved transcriptional profiling of Trichinella-infected murine myocytes helps to elucidate host–pathogen interactions in the muscle stage

ID Description Gene ratio (%) Bg ratio (%) Enrich. factora q-valueb
d-1, upregulated
 ko04668 TNF signaling pathway 11.56 1.37 8.44 2.06E−11
 ko04060 Cytokine-cytokine receptor interaction 10.98 3.19 3.45 0.000183
 ko04064 NF-kappa B signaling pathway 7.51 1.59 4.72 0.000183
 ko05144 Malaria 4.62 0.66 7.01 0.000626
 ko05202 Transcriptional misregulation in cancer 8.67 2.51 3.45 0.000914
 ko04621 NOD-like receptor signaling pathway 4.62 0.76 6.09 0.001182
 ko05132 Salmonella infection 5.20 1 5.23 0.001182
 ko05134 Legionellosis 4.62 0.83 5.55 0.001781
 ko04640 Hematopoietic cell lineage 5.78 1.37 4.22 0.002204
 ko05206 MicroRNAs in cancer 6.36 1.79 3.55 0.004319
 ko04933 AGE-RAGE signaling pathway in diabetic complications 5.20 1.27 4.1 0.004957
 ko04010 MAPK signaling pathway 8.67 3.27 2.65 0.007215
 ko04380 Osteoclast differentiation 5.78 1.67 3.47 0.007614
 ko04630 Jak-STAT signaling pathway 6.36 2.03 3.13 0.008884
 ko04066 HIF-1 signaling pathway 5.20 1.44 3.6 0.009357
 ko04920 Adipocytokine signaling pathway 4.05 0.91 4.45 0.009608
d-1, downregulated
 ko04974 Protein digestion and absorption 7.14 1.12 6.38 5.46E−06
 ko05150 Staphylococcus aureus infection 6.63 1.06 6.27 1.07E−05
 ko04612 Antigen processing and presentation 6.12 1.18 5.18 0.000166
 ko05321 Inflammatory bowel disease 5.10 0.83 6.12 0.000166
 ko05145 Toxoplasmosis 6.63 1.47 4.52 0.000166
 ko04512 ECM-receptor interaction 5.61 1.05 5.37 0.000166
 ko05310 Asthma 4.08 0.68 5.96 0.00131
 ko04672 Intestinal immune network for IgA production 4.59 0.90 5.12 0.001329
 ko04514 Cell adhesion molecules 7.14 2.13 3.36 0.001439
 ko05323 Rheumatoid arthritis 5.61 1.43 3.92 0.00198
 ko05152 Tuberculosis 7.65 2.53 3.03 0.002057
 ko05332 Graft-versus-host disease 4.08 0.78 5.21 0.002057
 ko04640 Hematopoietic cell lineage 5.10 1.37 3.73 0.004764
 ko04940 Type I diabetes mellitus 4.08 0.91 4.49 0.004971
d-3, upregulated
 ko04713 Circadian entrainment 13.89 1.19 11.62 0.004997
d-3, downregulated
 ko04974 Protein digestion and absorption 18.42 1.12 16.45 1.37E−05
 ko05144 Malaria 10.53 0.66 15.96 0.003842
 ko05143 African trypanosomiasis 10.53 0.71 14.84 0.003842
d-7, downregulated
 ko04512 ECM-receptor interaction 23.53 1.05 22.51 0.000396
 ko04974 Protein digestion and absorption 23.53 1.12 21.01 0.000396
 ko04510 Focal adhesion 23.53 2.60 9.05 0.00683
 ko04710 Circadian rhythm 11.76 0.35 33.76 0.009739
d-10, downregulated
 ko04974 Protein digestion and absorption 12.90 1.12 11.52 4.08E−05
 ko04512 ECM-receptor interaction 11.29 1.05 10.8 0.000179
 ko04932 Non-alcoholic fatty liver disease 12.90 1.94 6.65 0.000855
 ko05010 Alzheimer’s disease 12.90 2.24 5.76 0.001788
 ko00190 Oxidative phosphorylation 11.29 1.77 6.39 0.001807
 ko04151 PI3K-Akt signaling pathway 17.74 4.62 3.84 0.001807
 ko05012 Parkinson’s disease 11.29 1.84 6.13 0.001807
 ko05016 Huntington’s disease 12.90 2.48 5.21 0.001807
  1. KEGG pathway analysis identified signaling pathways over-represented in T. spiralis-infected mouse diaphragms (q-value < 0.01) compared to uninfected controls. Genes that were differentially expressed more than twofold were utilized as input with up- and downregulated genes considered respectively. For each enriched KEGG pathway, the ratio of DEGs in the pathway/all DEGs in all pathways (Gene ratio) and the ratio of genes in the pathway/all genes in all pathways (Bg ratio) are reported
  2. TNF Tumor necrosis factor, ECM extracellular matrix protein,NF nuclear factor, NOD nodulation, AGE–RAGE advanced glycation endproducts–receptor for advanced glycation endproducts, JAK–STAT Janus kinase-signal transducer and activator of transcription pathway, IgA immunoglobulin A, HIF-1 hypoxia-inducible factor 1, PI3K-Akt phosphatidylinositol 3-kinase/protein kinase B
  3. aEnrichment (Enrich.) factors show the proportion of gene ratio to Bg ratio. The bigger the enrichment factor, the more significant the pathway
  4. bq-value is the p-value adjusted by multiple hypothesis testing. The smaller the q-value, the more significant the pathway. The DEGs corresponding to the respective enriched KEGG pathway are shown in Additional file 3: Table S3