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Table 1 Features of the probes (X, Z) and SNPs (G) analyzed at 10 genes selected due to the associations between methylation levels and ΔHDL in Zhao et al. [3]

From: Investigating potential causal relationships between SNPs, DNA methylation and HDL

Gene CpGs: # in gene a/# nearby b (# genes nearby) SNPs: # in Set F/# in Set R # probes associated with ΔHDL c Gene CpGs: # in gene a/# nearby b (# genes nearby) SNPs: # in Set F/# in Set R #CpGs associated with ΔHDL c
RNMT;C18orf19 15/31(4) 128/21 1 GTF2IRD2 6/20 (4) 0/0 1
MIR130B 3/77(9) 90/10 2 VPS25 d 11/41(19) 59/3 4
C6orf141 14/34(5) 53/8 2 SBSN d 8/45 (3) 102/4 1
TUBB3 20/214 (8) 0/0 1 TPM4 29/74 (7) 161/14 1
TBX15 109/57(1) 91/63 2 PARP15 17/60(5) 146/1 4
  1. a Probes located within 20 kb of the gene of interest
  2. b Probes within 20 kb of neighboring genes, and up to (±100 kb) from the gene of interest; ie, CpGs used as potential pleiotropic phenotypes in the CIV method
  3. c Probes that showed significant associations in univariate analysis at significance level 0.01 with Bonferroni correction
  4. d Only probes within 20 kb (instead of 100 kb) of neighboring genes around genesVPS25and SBSN were used as Z