Table 4.
Gene set enrichment analysis
| Rank | Gene set |
|---|---|
| 1 | KEGG hypertrophic cardiomyopathy |
| 2 | KEGG dilated cardiomyopathy |
| 3 | Reactome muscle contraction |
| 4 | Reactome striated muscle contraction |
| 5 | Muscle development |
| 21 | Skeletal muscle development |
| 6 | Actin cytoskeleton |
| 8 | Structural molecule activity |
| 7 | Structural constituent of muscle |
| 9 | Regulation of multicellular organismal process |
| 12 | Regulation of heart contraction |
| 25 | Regulation of muscle contraction |
| 10 | KEGG cardiac muscle contraction |
| 11 | Cytoskeletal protein binding |
| 23 | Actin binding |
| 13 | KEGG arrhythmogenic right ventricular cardiomyopathy ARVC |
| 14 | Contractile fiber |
| 15 | Contractile fiber part |
| 19 | Myofibril |
| 16 | Heart development |
| 20 | Gated channel activity |
| 17 | Voltage gated channel activity |
| 18 | Voltage gated cation channel activity |
| 22 | Cation channel activity |
| 24 | Cytoskeletal part |
Negative enrichment: chronic C. pneumoniae-treated group vs. chronic control group.
The top 25 C. pneumoniae gene sets whose member genes are predominantly downregulated with respect to the chronic control group. Column 1 indicates the rank of the gene set based on Normalized Enrichment Score (NES). Column 2 lists the gene set name (bold) as provided by MSigDB. Gene set names and ranks that are not in bold are gene sets that are redundant or partially redundant and included within larger bolded gene sets. The NES ranged from -2.79 (for KEGG Hypertrophic Cardiomyopathy, the top ranked gene set) to -2.23 (Regulation of Muscle Contraction, the 25th-ranked gene set). FDR q < 1 × 10-30.