Table 3.

Top 5 networks impacted by SSc-associated CpG differential methylation

Top diseases and functions	Molecules in network (alphabetical)	Score	Focus molecules
Cancer, endocrine system disorders, organismal injury and abnormalities	Akt, ARL4C, BEX2, C1GALT1C1, CASK, CCDC120, CDK16, CG, Cyclin A, DLG3, estrogen receptor, FGFR2, FLT4, FSH, GALNT18, GFRA1, GRB10, Growth hormone, H19, HMGB3, Lh, MAGI1, MEST, mir-335, MPL, NAV1, NFYA, PARD6G, PAX8, PORCN, Proinsulin, Rb, TMEM204, YAP/TAZ, ZNF232	55	25
Developmental disorder, gastrointestinal disease, organismal injury and abnormalities	ADAP1, Alp, BCR (complex), Creb, DOCK11, DUSP9, EPS8L1, ERK1/2, FGD1, FLNA, G6PD, GTPase, KCNQ1, KCNQ1OT1, MAP2K1/2, MBTPS2, MSN, OTUD5, OTUD7A, p70 S6k, Pdgf (complex), PDGF BB, phosphatase, PI3K (family), Pka, PP2A, PSMB2, RB1, RPS6KA6, Rsk, SH3BP2, SHARPIN, Shc, Srebp, transcription factor	36	18
Connective tissue disorders, hereditary disorder, organismal injury and abnormalities	26 s Proteasome, Actin, caspase, CD3, CHST7, DKC1, EGLN, EIF2S3, F Actin, FAM83H, GLI4, HCFC1, HISTONE, Histone h2a, Histone h3, Histone h4, Hsp70, Hsp90, IKBKG, Immunoglobulin, KLF2, NECAB3, NFkB (complex), NOC2L, Notch, PARP11, PI3K (complex), Rnr, TCR, TMEM121, TMEM14C, TRAPPC9, Ubiquitin, USP6, Vegf	28	15
Cancer, cell death and survival, organismal injury and abnormalities	ADRB2, BARX2, CADM2, CAMK1G, CIITA, CREB1, CREBBP, DDX39A, FAS, GNAS-AS1, HEIH, HOXB3, IFNG, IL32, iodine, NEXMIF, NR4A1, PAX8-AS1, Pde4d, PDHA2, PDK3, PRPS2, PSD4, RGS9BP, SETD7, SMARCA4, SMIM10L2B, TFAP2E, TMEM187, TP53, TRPM1, TULP4, ZFP41, ZMIZ1, ZXDA	28	15
Cardiac dilation, hereditary disorder, organismal injury and abnormalities	AIFM1, AMPK, BCOR, BRCC3, Calmodulin, calpain, CMC4, cytokine, DUSP22, EFNB1, EMD, ERK, GNAS, GOPC, IFN Beta, IgG, Igm, Insulin, Interferon alpha, Jnk, Mapk, Mek, Nfat (family), P38 MAPK, PGK1, Pkc(s), PTK, Ras homolog, Sapk, SLC6A8, SLC7A5, SRC (family), SSBP4, STAT5a/b, UNC93B1	26	14

DMGs identified by SOMNiBUS are bold