The UK Biobank Pharma Proteomics Project (UKB-PPP) is a collaboration between the UK Biobank (UKB) and thirteen biopharmaceutical companies characterising the plasma proteomic profiles of 54,219 UKB participants. Here, we present comprehensive protein quantitative trait loci (pQTL) mapping of 2,923 proteins that identifies 14,287 primary genetic associations, of which 85% are newly discovered, in addition to ancestry-specific pQTL mapping in non-Europeans. We identify independent secondary associations in 87% of cis and 30% of trans loci, expanding the catalogue of genetic instruments for downstream analyses.

Genetic architecture of pQTLs. Summary of pQTLs across the genome. Lower panel: genomic locations of pQTLs against the locations of the gene encoding the protein target. Cis pQTLs (red), trans (blue). Upper panel: number of associated protein targets for each genomic region (axis capped at 100, regions with ≥100 number of associated proteins labelled, with number in parenthesis).

Data access

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Interactive matrix and annotations for all cis-loci and associated protein targets.
Interactive tables with pGWAS summary statistics for individual SNPs. Results can be sorted and filtered.
Metadata and pGWAS summary statistics can be downloaded from Synapse:
Project SynID: syn51364943
DOI: 10.7303/syn51364943