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Table 2 Results of the enrichment analysis of the top CpGs

From: Integrated genetic and methylomic analyses identify shared biology between autism and autistic traits

CpG p value threshold

GWAS

p value

Mean difference

FDR-corrected p value

0.05:

Autism

0.54

0.004

0.54

0.01:

Autism

1.0 × 10−4

0.039

5 × 10−4

0.005

Autism

1.9 × 10−3

0.031

4.75 × 10−3

0.001:

Autism

0.040

0.037

0.063

0.05:

SCDC

0.735

0.007

0.73

0.01:

SCDC

0.301

0.015

0.40

0.005

SCDC

0.022

0.038

0.046

0.001:

SCDC

0.023

0.065

0.046

0.05:

Alzheimer’s

0.343

0.008

0.853

0.01:

Alzheimer’s

0.710

0.003

0.853

0.005

Alzheimer’s

0.853

− 0.003

0.853

0.001:

Alzheimer’s

0.793

− 0.009

0.853

  1. The table provides the results of the enrichment analyses for the top loci. We calculated the difference between the average p values for all the mQTLs mapped to CpGs below a selected threshold in the MWAS (CpG p value threshold) and the mQTLs mapped to CPGs above the threshold in the SCDC MWAS. This value is referred to as “mean difference” in the table. A positive difference suggests and enrichment. We then permuted the results after correcting for various factors, and computed a permuted p value (p value). We then corrected it for multiple testing using FDR correction (FDR-corrected p value). This was done using a GWAS for autism, SCDC, and Alzheimer’s