LD reference panel for UKB-PPP cis-pQTL

NEWLOC_protein.txt includes information for 2954 cis-pQTL regions.

Each row name in the file follows the format:

[GeneSymbol].[GeneSymbol]_[UniProtID]_[OlinkID]_v[Version]_[PanelName]_[Number].[Chromosome]:[StartPosition]-[EndPosition];

For example, "A1BG.A1BG_P04217_OID30771_v1_Inflammation_II_2.19:57856549-59864858"

In the "LD.path", it includes LD files, eigenvectors, and eigen matrixes for all local regions, end by "_LDSVD.rda"

In the "bim.path", it includes bim files for local regions, which helps to clean the summary statistics data and check if there are multiallelic or duplicated SNPs

In the "Figures.zip", it includes all the datasets and analysis scripts required to reproduce Figure 1–3, Figure 4A, and Supplementary Figures S1–S4 from the manuscript “High-definition likelihood inference of colocalization reveals protein biomarkers for human complex diseases.”

All data files are released under the CC0 1.0 Universal license to support full reproducibility and reuse.