Additional file 2 of Proteo-genomics of soluble TREM2 in cerebrospinal fluid provides novel insights and identifies novel modulators for Alzheimer’s disease

Additional file 2. Table S1. Association results of CSF sTREM2 by eight cohorts. Table S2. Association results of CSF sTREM2 in Joint (with VMAP), Meta (with VMAP), and Meta (No VMAP). Table S3. Genetic regulation of the four index variants based on six GWAS analyses. Table S4. Association of sTREM2 in CSF and plasma at four loci. Table S5. Summary of association results in the European individuals (EUR) and non-European (nonEUR) individuals (P<5e-8 in EUR). Table S6. Characteristics of sample by cohorts for non-European participants. Table S7. Linkage Disequilibrium Matrix among 8 chromosome SNPs. Table S8. Interaction of rs583791 and rs6591561 for CSF sTREM2. Table S9. Interaction of rs583791 and rs6591561 for AD. Table S10. Association of chromosome 11 SNPs with AD endophenotypes and AD risk. Table S11. Colocalization analyses with AD GWAS. Table S12. Colocalization analyses with eQTLGen cis-eQTLs. Table S13. Colocalization analyses with GTEx cis-eQTLs. Table S14. Colocalization analyses with MetaBrain cis-eQTLs. Table S15. Association of two variants in the NECTIN2 locus with expression of the five genes. Table S16. Association results of rs11666329 and rs57537848 with AD and NECTIN2 cortex expression before and after conditioning on APOE. Table S17. Instrument SNPs used in two sample MR analyses. Table S18. Association of four sentinel variants with other CSF proteins. Table S19. Comparison of cohorts used by our previous (Deming et al 2019) and our current paper. Table S20. The Z-score cut-off and their corresponding raw values determined using Gaussian mixture models.