Table 1.
Comparison of Hub Genes for Specifically Expressed Genes in PI versus H Ranked in the cytoHubba Plugin of Cytoscape
| Catalog | Rank Methods in cytoHubba | |||
|---|---|---|---|---|
| MCC | MNC | Degree | EPC | |
| Gene top 20 | Il1b | Tlr2 | Il1b | Il1b |
| Tlr2 | Il1b | Tlr2 | Tlr2 | |
| Ccl3 | Ccl3 | Ccl3 | Ccl3 | |
| Ccl4 | Ccl4 | Ccl4 | Ccl4 | |
| Irg1 | Irg1 | Vegfa | Irg1 | |
| Vegfa | Clec4e | Cd68 | Clec4e | |
| Clec4e | Gsta3 | Fcgr3 | Cxcr2 | |
| Cyp2e1 | A4galt | Hgf | Cd68 | |
| Cd68 | Gla | Cyp2e1 | Cd80 | |
| Cxcr2 | Adcy4 | Clec4e | Fcgr3 | |
| Fcgr3 | Adcy5 | Tgfb3 | Vegfa | |
| Gsta3 | Cyp2e1 | Eng | Nlrp3 | |
| Hgf | Lmod1 | Thbs1 | Clec4n | |
| Myh11 | Myh11 | Ngfr | Clec7a | |
| Cd80 | Cxcr2 | Myh11 | Hgf | |
| A4galt | Cd80 | Irg1 | Osm | |
| Gla | Clec7a | Trem2 | Ptgs2 | |
| Tgfb3 | Gstm1 | Cd80 | Ccr1 | |
| Eng | Hexa | Osm | Fpr1 | |
| Adcy4 | Il1rn | Nlrp3 | Ms4a6d | |
Note: The bolded genes represent the overlapping hub genes that were ranked in the top 20 by four different approaches in cytoHubba.
Abbreviations: MCC, maximum clique centrality; MNC, maximum neighborhood component; Degree, degree of connection between nodes; EPC, edge percolated component.