KidneyGPS

KidneyGPS prioritizes genes and genetic variants associated with kidney function by integrating GWAS-derived evidence to support post-GWAS interpretation and experimental follow-up.

Key Features:

• Integration of GWAS Data: Integrates GWAS associations for estimated glomerular filtration rate (eGFR) from the Chronic Kidney Disease Genetics (CKDGen) consortium covering 424 GWAS loci and 35,885 variants within the 99% credible sets of 594 independent signals.
• SNP-to-Gene Mapping: Annotates genetic variants with functional or regulatory effects and maps SNPs to candidate genes.
• Gene-to-Phenotype Correlation: Links genes to kidney phenotypes observed in mice and humans.
• Drugability Assessment: Aggregates data on gene drugability to inform therapeutic target identification and drug repurposing.
• Customizable Gene Prioritization (GPS): Generates customizable prioritized gene lists based on known kidney phenotypes or variant-level statistical support.

Scientific Applications:

• Hypothesis Generation: Generates hypotheses about kidney physiology and disease etiology from GWAS and post-GWAS analyses.
• Target Prioritization: Prioritizes genes and variants for experimental validation and therapeutic target discovery, including candidate selection for drug repurposing.
• Post-GWAS Interpretation: Supports interpretation of eGFR-associated loci from CKDGen for downstream translational and functional studies.

Methodology:

Integrates CKDGen eGFR GWAS associations; compiles 99% credible sets (35,885 variants across 594 independent signals within 424 loci); annotates variants for functional and regulatory effects; performs SNP-to-gene mapping; collates mouse and human kidney phenotype associations; aggregates gene drugability annotations; and provides filters to generate prioritized gene lists.