Table 2 List of significant associations with DD signature. The lowest GAMMA P for SNP was listed among multiple SNP related to one eGene (See also Additional file 4)
From: Integrative genomic and transcriptomic analysis of genetic markers in Dupuytren’s disease
Chr | Position | rs ID | GAMMA P value | eGenes (q value < 0.05) | |||
|---|---|---|---|---|---|---|---|
Gene Symbol | Gene Name | Effect size (beta) | Gene Type | ||||
3 | 49,769,419 | rs62262722 | 1.4E-05 | AMT | aminomethyltransferase | −0.16 | protein coding |
FAM212A | family with sequence similarity 212 member A | 0.26 | protein coding | ||||
49,858,661 | rs55997059 | 1.7E-05 | WDR6 | WD repeat domain 6 | 0.20 | protein coding | |
49,898,318 | rs62260755 | 2.4E-05 | RBM6 | RNA binding motif protein 6 | −0.28 | protein coding | |
6 | 30,500,730 | rs148983519 | 3.8E-05 | HCG9 | HLA complex group 9 (non-protein coding) | 1.11 | lincRNA |
30,642,417 | rs201344092 | 1.1E-05 | ZFP57 | ZFP57 zinc finger protein | 1.44 | protein coding | |
30,664,568 | rs58368675 | 2.2E-05 | HLA-G | major histocompatibility complex, class I, G | 1.34 | protein coding | |
32,145,707 | rs2269423 | 1.2E-05 | HLA-DQA1 | major histocompatibility complex, class II, DQ alpha 1 | −0.44 | protein coding | |
HLA-DRB5 | major histocompatibility complex, class II, DR beta 5 | −0.41 | protein coding | ||||
HLA-DQB2 | major histocompatibility complex, class II, DQ beta 2 | 0.46 | protein coding | ||||
HLA-DQB1 | major histocompatibility complex, class II, DQ beta 1 | −0.51 | protein coding | ||||
HLA-DRB1 | major histocompatibility complex, class II, DR beta 1 | −0.42 | protein coding | ||||
HLA-DQB1-AS1 | HLA-DQB1 antisense RNA 1 | −0.54 | antisense | ||||
12 | 9,799,363 | rs58481733 | 4.4E-05 | DDX12P | DEAD/H-box helicase 12, pseudogene | −0.57 | pseudogene |
15 | 40,374,582 | rs73390668 | 2.9E-05 | SRP14-AS1 | SRP14 antisense RNA1 (head to head) | −0.31 | lincRNA |
77,312,826 | rs16968627 | 4.4E-05 | RP11-797A18.4 | RP11-797A18.4 | −0.55 | lincRNA | |