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The cohorts which show smaller effect size have all been imputed.
All data was imputed, managed, and stored according to the standards and recommendations of the ethics committee of participant institutes.
First, all genotypic data was imputed to the HapMap3 reference dataset to correct for diversity of the genotyping chips (this reference was subsequently updated to the 1,000 Genomes dataset for ENIGMA2, which began in May 2012).
This median duration was imputed for all individual prescriptions where duration was not recorded.
For the comorbidity item "average for age" was imputed for all patients.
The 15th day of the month was imputed for all cases in which the day of the last menstrual period was unknown.
A conservative 'no vitamin C effect' estimate was imputed for all the nine participants with missing data (see online supplementary file 2).
Once imputation was carried out, the next variable with the least amount of missing data was imputed using all variables with non-missing values as independent variables including the variable imputed on the previous step.
The mode of the covariate, i.e. the most frequently occurring category among the individuals for whom the covariate was observed, was imputed for all individuals lacking the covariate.
As this SNP was imputed in all studies driving the association, we checked cluster plots of all directly typed variants 500 kb upstream and downstream of the associated SNP in all studies, excluded SNPs with poor clustering, re-imputed the region and re-run the meta-analysis.
The rest was imputed rent.
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