Nanopore sequencing identifies parent-of-origin specific age-associated methylation changes at imprinted loci in the human genome

Summary Statistics Data for the manuscript "Nanopore sequencing identifies parent-of-origin specific age-associated methylation changes at imprinted loci in the human genome". Supplementary Data Description Supplementary Table 1 – deCODE summary statistics Summary statistics of all 22,178,471 autosomal CpGs showing whether they are high-quality and if not, why they failed. Chrom: chromosome Start: start coordinate End: end coordinate Ratio: Average methylation levels Passed_strandBias: binary column indicating whether the CpG passed strand bias filter Passed_fractionReliable: binary column indicating whether the CpG passed fraction of reliable reads filter Passed_coverage: binary column indicating whether the CpG passed coverage filter Supplementary Data 2 – deCODE summary statistics Summary statistics from linear regression of methylation on age for 3,739,875 autosomal CpGs that reached Bonferroni significance (p-value<2.8∙10-9=0.05/18∙106). Chrom: chromosome Start: start coordinate End: end coordinate Intercept: intercept calculated from linear regression model Effect_size: effect size calculated from linear regression model Std_err: standard error calculated from linear regression model T_val: standard error calculated from linear regression model P_val: p-value calculated from linear regression model Supplementary Data 3 – deCODE summary statistics Summary statistics for methylation aging clock, including the intercept and coefficients for 1,373 CpGs with non-zero regression coefficient in the lasso regression model. Attribute: Name of the attribute in model, either intercept or CpG name on the format chrom_start_end Coefficient: Value of coefficient or intercept. Supplementary Data 4 – deCODE summary statistics Summary statistics from linear regression of haplotype resolved methylation on age for 1,274,315 autosomal CpGs that reached Bonferroni significance (p-value<2.8∙10-9) on one of the parental haplotypes. Chrom: chromosome Start: start coordinate End: end coordinate Mean_M: mean methylation levels of maternal haplotype Mean_P: mean methylation levels of paternal haplotype Coef_M: effect size for maternal haplotype calculated from linear regression model Coef_P: effect size for paternal haplotype calculated from linear regression model P_val_M: p-value for maternal haplotype calculated from linear regression model P_val_P: p-value for paternal haplotype calculated from linear regression mode Stderr_M: standard error for maternal haplotype calculated from linear regression model Stderr_P: standard error for paternal haplotype calculated from linear regression model Supplementary Data 5 – deCODE summary statistics Summary statistics from 702 CpGs that reached Bonferroni significance (p-value<3.9∙10-8) in difference between the effect sizes for maternal- and paternal haplotypes, calculated using two-sided z-test. Chrom: chromosome Start: start coordinate End: end coordinate Mean_M: mean methylation levels of maternal haplotype Mean_P: mean methylation levels of paternal haplotype Coef_M: effect size for maternal haplotype calculated from linear regression model Coef_P: effect size for paternal haplotype calculated from linear regression model P_val_M: p-value for maternal haplotype calculated from linear regression model P_val_P: p-value for paternal haplotype calculated from linear regression mode Stderr_M: standard error for maternal haplotype calculated from linear regression model Stderr_P: standard error for paternal haplotype calculated from linear regression model Cpgs: CpG name Z: z-value for effect size comparison P: p-value for effect size comparison Hap: Significant haplotype Unmet: unmethylated haplotype Allele: Methylation status of allele Met_dif: Absolute difference between mean_M and mean_P Est_dif: Absolute difference between coef_M and coef_P