Table 1.
Significant overlap and preserved modules in WGCNA of 3′UTR methylation and expression
| Methylation module (size) | Expression module (size) | Overlap count (p value) | Z summary | Median rank | Functional annotation | Gene symbols |
|---|---|---|---|---|---|---|
| Magenta (79) | Turquoise (181) | 20 (6.17E-05) | 28 | 6 | Regulation of Ras protein signal transduction | ABCC3,ALS2CL,ATG16L2,COG8,DNASE1,DOCK9,ESPL1,PDE4D,TMEM63C,TNFAIP2,TNFRSF4,TTLL1,UQCC1,ZNF385A |
| Red (101) | Grey60 (52) | 9 (2.04E-03) | 13 | 19 | Cell division and chromosome partitioning/cytoskeleton | CHID1,FDXR,HERC2,HERC6,MYO9B,SEPT5,UBXN7 |
| Yellow (165) | Turquoise (181) | 28 (3.18E-03) | 28 | 6 | Kinases | ATG16L2,BMP1,C1orf159,CLUH,COL6A2,CRTC1,DAGLA,DNAH3,ENTHD2,EPHA10,FAM101B,FAM53A,GPR56,IGF1R,LAMC3,NLRP2,NR3C2,OPLAH,PITPNM2,PPP2R2B,PRKCA,PTPRK,RASGRF1,STK32C,THNSL2 |
| Turquoise (284) | Blue (176) | 41 (4.83E-03) | 13 | 18 | Signaling and apoptosis, cell cycle checkpoint | ACOXL,ANKH,ARHGEF18,B3GAT3,CCAR1,CCDC137,CKB,CREM,DDX39A,DFFB,DNAJB12,FAIM3,HUS1,ITPK1,KIAA0930,LRPAP1,MGRN1,MRPS24,NADK,NRARP,NUBPL,NUP155,OSBPL7,PHF14,PIP5K1A,PPFIA3,PSTPIP1,PTMA,RALBP1,RIN3,RPS6KB2,SH3BP2,SH3TC1,TP53I3,TRAF4,TRIB2,TSSC1,USP42 |
| Brown (197) | Light green (49) | 12 (5.48E-03) | 9.8 | 9 | Apoptosis/cell death | UEVLD,UNC13B,DTNB,BANP,IRF7,CCNL2,INTS9,FNTA,RBM19,DNASE1,GRB7 |
| Midnightblue (45) | Turquoise (181) | 10 (1.24E-02) | 28 | 6 | Ion binding | ABLIM2,ACE,COMMD1,ELFN2,GLT1D1,HAUS7,TOM1 |
| Turquoise (284) | Midnight blue (55) | 15 (2.11E-02) | 12 | 2 | Nucleotide binding | ADCY9,AGTRAP,BSDC1,INO80E,MCHR1,MTHFSD,NADK,P4HB,PDE8A,POR,RAB3A,RPS19BP1,SMUG1,SOX12,STX8 |