lipid.scores

Risk scores parameterised using GWAS meta-analysis results published
  by the Global Lipid Genetics Consortium (Teslovich et al. Nature
  2010).  There are scores for four different lipid level phenotypes
  (High Density Lipoprotein HDL; Low Density Lipoprotein LDL; Total
  Cholesterol TC; Triglycerides TG), all parameterised using genome wide
  significant SNPs reported in Supplementary Table 1 of Teslovich et
  al. (2010).

datasets

Assorted tools for genetic association analyses.  The
        current focus is on implementing (either exactly or
        approximately) regression analyses using summary statistics
        instead of using subject-specific data.  So far, functions
        exist to support multi-SNP risk score analyses, multi-SNP
        conditional regression analyses, and multi-phenotype analyses,
        using summary statistics.  There are helper functions for
        reading and manipulating subject-specific genotype data, which
        provide a platform for calculating the summary statistics, or
        for using R to conduct other analyses not supported by specific
        GWAS analysis tools.

Toby Johnson

Genetics ToolboX

lipid.scores function

A data frame suitable for use with other functions in this package.
  
  These scores are called HDL2010, LDL2010, TC2010 and TG2010, and have 
  coefficients in mg/dl per coded allele.<p></p><p>  Additional scores based on larger numbers of SNPs are available separately...
  LDL.prune.0.01 and there is an additional column in the data frame,
  p-value, that should be used to threshold on.  The coefficients are
  back-calculates from Z scores and HapMap allele frequency data.</p>

format

For the publication by Teslovich et al. from which these
  data were extracted see <url>http://dx.doi.org/10.1038/nature09270</url>.

lipid.scores: Genetic risk scores for serum lipid levels

Description

Usage

Arguments

format

source