Kiryluk Lab

Genome-wide polygenic score for CKD

This risk score was designed and optimized for risk prediction of moderate to severe chronic kidney disease (CKD stage 3 or above) across major continental ancestries. The polygenic component of the risk score was based on the GWAS for estimated glomerular filtration rate (Wuttke et al. Nature Genetics 2019) and optimized using UK Biobank data. The risk equation additionally incorporates information on APOL1 high risk genotypes, improving its performance in individuals of African ancestry. The final GPS equation was tested in 15 independent case-control cohorts of European, African, Asian, and admixed Latinx ancestry from the UK Biobank, eMERGE-III, BioMe, REGARDS, HyperGEN, WPC, and GenHAT.

Files

README
Genome-wide Polygenic Score		~4MB
APOL1.risk.v1.sh		~1KB

References:

Atlas Khan, Michael C. Turchin, Amit Patki, Vinodh Srinivasasainagendra, Ning Shang, Rajiv Nadukuru, Alana C. Jones, Edyta Malolepsza, Ozan Dikilitas, Iftikhar J. Kullo, Daniel J. Schaid, Elizabeth Karlson, Tian Ge, James B. Meigs, Jordan W. Smoller, Christoph Lange, David R. Crosslin, Gail Jarvik, Pavan Bhatraju, Jacklyn N. Hellwege, Paulette Chandler, Laura Rasmussen Torvik, Alex Fedotov, Cong Liu, Christopher Kachulis, Noura S. Abul-Husn, Judy H. Cho, Iuliana Ionita-Laza, Ali G. Gharavi, Wendy K. Chung, George Hripcsak, Chunhua Weng, Girish Nadkarni, Marguerite R. Irvin, Hemant K. Tiwari, Eimear E. Kenny, Nita A. Limdi, Krzysztof Kiryluk Genome-wide polygenic score with APOL1 risk genotypes predicts chronic kidney disease across major continental ancestries.. Nature Medicine. 2022. doi.org/10.1101/2021.10.25.21265398.