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Fig. 2 | Genome Biology

Fig. 2

From: An integrated genetic-epigenetic analysis of schizophrenia: evidence for co-localization of genetic associations and differential DNA methylation

Fig. 2

Replication of schizophrenia-associated DNA methylation differences identified in the phase 1 analysis in two independent cohorts. Shown are scatterplots demonstrating the concordance in effect size [schizophrenia-associated DNA methylation difference (%)] between the phase 1 (case–control) cohort (n = 675) (x-axis) and either the (a) phase 2 (case–control) cohort (n = 847) or (b) phase 3 (n = 96 monozygotic twin pairs) cohort for probes associated with schizophrenia at both the experiment-wide (P < 1 × 10−7; red circles) and discovery (P < 5 × 10−5; blue triangles) P-value thresholds. Many of these individual DNA methylation sites are significantly associated with schizophrenia in the replication cohorts (Table 1 and Additional file 2: Table S3). Meta-analyses across the three independent cohorts identified many additional sites significantly associated with schizophrenia at P < 1 × 10−7. (c) A forest plot of the top ranked probe from the meta-analysis (cg02488934), with the effect size and standard error (SE) from each individual cohort and the pooled effect from the meta-analysis. CI confidence interval

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