Parsa et al., 2013
https://pubmed.ncbi.nlm.nih.gov/24029420/
Common variants in Mendelian kidney disease genes and their association with renal function
Many common genetic variants identified by genome-wide association studies for complex traits map to genes previously linked to rare inherited Mendelian disorders. A systematic analysis of common single-nucleotide polymorphisms (SNPs) in genes responsible for Mendelian diseases with kidney phenotypes has not been performed. We thus developed a comprehensive database of genes for Mendelian kidney conditions and evaluated the association between common genetic variants within these genes and kidney function in the general population. Using the Online Mendelian Inheritance in Man database, we identified 731 unique disease entries related to specific renal search terms and confirmed a kidney phenotype in 218 of these entries, corresponding to mutations in 258 genes. We interrogated common SNPs (minor allele frequency >5%) within these genes for association with the estimated GFR in 74,354 European-ancestry participants from the CKDGen Consortium. However, the top four candidate SNPs (rs6433115 at LRP2, rs1050700 at TSC1, rs249942 at PALB2, and rs9827843 at ROBO2) did not achieve significance in a stage 2 meta-analysis performed in 56,246 additional independent individuals, indicating that these common SNPs are not associated with estimated GFR. The effect of less common or rare variants in these genes on kidney function in the general population and disease-specific cohorts requires further research.
Data set description
- Listing of Mendelian disorders with known renal phenotypes and meta-analysis results of associations between common variants in Mendelian renal dysfunction genes with estimated glomerular filtration rate and chronic kidney disease.
- Tables are presented as follows:
- Table 1:List of Mendelian disorders with primary renal developmental or glomerular related dysfunction
- Table 2: List of Mendelian disorders with primary renal tubular dysfunction
- Table 3: List of Mendelian disorders with secondary cause for renal injury
- Table 4: eGFR meta-analysis results for top associated SNP within each Mendelian kidney disease gene
- Table 5: CKD meta-analysis results for top eGFR associated SNP within each Mendelian kidney disease gene
- Table 6: Complete eGFR meta-analysis results of all SNPs in the 258 Mendelian kidney disease genes
Phenotypes
- eGFR
- CKD
Citation
Reference The preferred citation is as follows:
- Parsa A, Fuchsberger C, Köen A, et al. Common Variants in Mendelian Kidney Disease Genes and Their Association with Renal Function and CKD. J Am Soc Nephrol. 2013 Dec;24(12):2105-17