CKDGEN Meta-Analysis Data

These files contain the summary meta-analysis data from the CKDGen consortium for the following 5 traits from the Pattaro et al. 2015 publication:

  1. eGFRcrea (Nmax=133,814)
  2. eGFRcrea_DM (Nmax=11,529)
  3. eGFRcrea_nonDM (Nmax=118,460)
  4. eGFRcys (Nmax=33,152)
  5. CKD (Nmax=118,147)
  6. eGFRcrea_AA (Nmax=16,474)
  • Analyses are performed among participants of European ancestry unless otherwise specified
  • DM and nonDM indicate results from analyses stratified by diabetes status
  • All other analyses were performed in the overall group
  • eGFRcrea_AA were analyses performed among participants of African ancestry

(These are .csv zipped files)

Within each file, the data are presented as follows:

  • rsID, allele1, allele2, freqA1, beta, se, pval, N
  • allele1=the coded allele
  • allele2=noncoded allele
  • freqA1 is the frequency of allele1 from the Hapmap CEU (European ancestry analyses) or HapMap YRI (African ancestry analyses)
  • beta is the beta-coefficient for allele1 (rounded to 2 significant digits)
  • se is the double GC corrected standard error (rounded to 2 significant digits)
  • pval is the double GC corrected p-value (rounded to 2 significant digits)
  • N is the sample size.

The preferred citation is as follows:

Pattaro C, Teumer A, Gorski M, et al. Genetic Associations at 53 Loci Highlight Cell Types and Biologic Pathways for Kidney Function. Nature Communications. 2015 – full reference to be provided when published

These files contain the summary meta-analysis data from the CKDGen consortium for the following 5 traits from the Kottgen et al. 2010 and Boger et al. 2011 publications:

1. eGFRcrea (n=67,093)
2. eGFRcyse (n=20,957)
3. CKD (n=62,237)
4. UACR (n=31,580)
5. MA (n=30482)

(These are .csv zipped files)

Within each file, the data are presented as follows:

  • rsID, allele1, allele2, freqA1, direction, pval
  • Allele1=the coded allele
  • Allele2=noncoded allele
  • FreqA1 is the frequency of allele1 from the Hapmap CEU sample
  • Direction refers to the direction of effect for allele1. Can be +/-/0.
  • The p-value is the double GC corrected p-value.

The preferred citations are as follows:

  • For eGFRcrea, eGFRcys, and CKD: Kottgen A, Pattaro C, Boger CA et al. New loci associated with kidney function and chronic kidney disease. Nat Genet 2010 May;42(5):376-84.
  • For UACR and MA: Boger CA, Chen MH, Tin A et al. CUBN Is a Gene Locus for Albuminuria. J Am Soc Nephrol 2011 Mar;22(3):555-70.

 


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

This downloadable file has six tabs corresponding to the following table:

  • 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

Reference:

Afshin Parsa, Christian Fuchsberger, Anna Köttgen, et al. Common Variants in Mendelian Kidney Disease Genes and Their Association with Renal Function and CKD. J Am Soc Nephrol, 2013 Sep 12. [Epub ahead of print] PubMed PMID: 24029420.

Link to paper: http://jasn.asnjournals.org/content/early/2013/09/11/ASN.2012100983.long

Details regarding the case numbers and samples can be found within these published documents.