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aur1363-sup-0001-si.docx41K

Table S1. P-values of top hits after combining discovery and replicate stages. Only single-nucleotide polymorphisms (SNPs) that had their significance level raised after merging were included in this table. For each SNP, we included P-values of case mother versus father test in discovery stage (AGREMvF), case mother versus control female test in discovery stage (AGREFvF), case mother versus father test in replicate stage (simonMvF), case mother versus control female test in replicate stage (simonFvF), case mother versus father test in merged dataset (mergeMvF), and case mother versus control female test in merged dataset (mergeFvF).

aur1363-sup-0002-si.docx13K

Table S2. Comparison of significant levels between our study and EMIM result for top 10 hits. We tested the 10 most significant single-nucleotide polymorphisms (SNPs) in Table 1 and used Cordell's linear model (EMIM) to predict their association with autism under child genotype effect model, maternal genotype effect model, and maternal imprinting model, respectively. For SNPs that are not directly genotyped, we looked for genotyped SNPs in LD (R2 > 0.9), with target SNPs and performed EMIM on them. P-values for each SNP under each model is reported in the table. pvaluesCG represents P-values under child genotype effect model; pvaluesMG represents P-values under maternal genotype model; and pvaluesIM represents P-values under maternal imprinting model. NA,no SNP in LD available for testing.

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