The ARIC model for MetaXcan is in Box: https://uchicago.box.com/s/3sf4y4gv6c7zam0l5fxicpcd3zji5wzc
The Atherosclerosis Risk in Communities Study (ARIC) generated genotype and proteomic data from a total of 9,084 participants (7,213 European Americans and 1,871 African Americans). The relative conectrations of plasma proteins or protein complexes was measured from blood samples using an aptamer-based approach. Genotyping of blood samples was imputed to the TOPMed reference panel (GRCh38).
Nilan Chatterjee et al analyzed cis-genetic regulation of the plasma proteome, generating PWAS through TWAS/Fusion pipeline. They study involved 4,665 SOMAmers measuring 4,491 unique plasma proteins or protein complexes encoded by 4,445 autosomal genes.
For details on the paper: https://www.biorxiv.org/content/10.1101/2021.03.15.435533v1.full
Generating the model
We created a prediction model compatible with MetaXcan software from the weights generated by Nilan Chatterjee et al’s PWAS study. The steps are documented below: