Multi-Ethnic Genotyping Array

: Last Updated: 25 September 2018

PAGE II is genotyping 50,000 samples using MEGA, an Illumina high density custom exomechip array, to continue emphasis on characterizing population-level disease risks in non-European-descent individuals. Cohorts in PAGE II are: CALiCo (Causal Variants Across the Life Course, a consortium of ARIC, CARDIA, HCHS/SOL, Strong Heart Studies), ISMMS (Mount Sinai BioMe Biobank), MEC (Multiethnic Cohort), and WHI (Women’s Health Initiative). PAGE is investigating anthropometric, cardiovascular, hypertension, kidney, inflammatory, lipid, T2D, and other traits.

PAGE is actively seeking other MEGA users for collaborative efforts. Please fill out this voluntary short survey to provide information about your MEGA study. If you'd like us to share this info with other MEGA users, we will post an info table here. Otherwise we will use your info only internally within PAGE.

You can find information here about Illumina's MEGA:

Illumina Expanded Multi-Ethnic Genotyping Array MEGA-EX (from CIDR)
Illumina Infinium Multi-Ethnic Global BeadChip
News article from GenomeWeb

You can find Illumina two strand translation files here:

You can find the SNP submission file at dbSNP here:

You can also find 637 SNP annotations and 575 Indel annotations for the MEGA loci from WGSA, as well as the PAGEII allele frequencies for each loci and population in PAGE. The package includes tabix formatted files for faster selection. Note that the compressed annotations file is large (2.1GB). The PAGEII_WGSA_MEGA_QC_Filtering.tar.gz file describes sites that were removed before annotation, and quality control workflow applied.

MEGA Files