Table 2.
The comparison between gene modules identified by our method and similar genes acquired with GRAIL
| Gene modules identified by our method |
Similar genes acquired with GRAIL |
|||
|---|---|---|---|---|
| Gene module (sub-network) | Genes included in gene module | Pmodulea | Similar genes | Ptextb |
| rs1424903-related | ZNF238, NDEL1, GMDS, RUNX1, MYH9, ELOVL6, CTSB, PHACTR1, BHMT2, SLC9A4, LOC339977, ANKH | 1.5E-13 | PRKCB1, PLEK, IQGAP2, MYH9, ELOVL6, CTSB, PHACTR1 | 0.0026 |
| rs744877 (CD160)-related | CD160, C21orf34, LHFP, GRPEL2, CNTN4, CSNK2A2, WDR62 | 2.3E-5 | CTSB, CASP6, PRKCB1, GRPEL2, CNTN4, CSNK2A2 BTBD9, CASP6, CSNK2A2, | 0.0131 |
| rs1004531 (TNFAIP8)-related | TNFAIP8, PLAU, RIMS1, C10orf55, ELF1 | 0.010 |
ELF1, TNFATP8, RIMS1, PLAU MYH9, NLRP7, |
0.0249 |
| rs164466-related | TNFAIP8, MTMR9 | 0.010 | CSNK2A2, ELOVL6, PRKCB1 | 0.0038 |
| rs759382 (SLC9A4)-related | SLC9A4, C21orf34 | 0.010 | ||
a
Pmodule indicates the probability of a hub SNP with >t connections (t is the degree of the hub) in a random network.
b
Ptext is the text-based similarity metric based on GRAIL. Similar genes with Ptext<0.01 by GRAIL analysis are shown. Genes underlined represent common genes shared by two gene sets, which are gene modules identified by our method and genes acquired with GRAIL.