gtx (version 0.0.8)

bp.scores: Genetic risk scores for blood pressure.

Description

Risk scores parameterised using GWAS meta-analysis results for 29 SNPs published by the International Consortium for Blood Pressure GWAS (ICBP-GWAS Nature 2011). There are scores for systolic blood pressure (SBP), diastolic blood pressure (DBP), and mean blood pressure (MBP).

Usage

data(bp.scores)

Format

A data frame suitable for use with other functions in this package, see gtx.params. There are three scores are called SBP2011, DBP2011 and MBP2011. Mean blood pressure is defined $(SBP+DBP)/2$ and is not the same as mean arterial pressure. These are parameterised using the “all data” effect size estimates from Table 1 and Supplementary Table 5 of the ICBP-GWAS manuscript. There are also two scores called SBP2011A and DBP2011A. There are parameterised using the “unbiased” effect size estimates from Supplementary Appendix A of the ICBP-GWAS manuscript. The coefficients are all in mmHg per coded allele dose after medication adjustment (which was +15mmHg SBP and +10mmHg DBP for medicated individuals).

Source

For the publication by ICBP-GWAS from which these data were extracted see http://dx.doi.org/10.1038/nature10405.

Examples

data(bp.scores)
head(subset(bp.scores, score == "SBP2011A"))
sbp <- subset(bp.scores, score == "SBP2011A")
dbp <- subset(bp.scores, score == "DBP2011A")
dbp <- dbp[match(sbp$locus, dbp$locus), ]
plot(sbp$coef/sign(sbp$coef), dbp$coef/sign(sbp$coef),
     xlim = c(0, max(sbp$coef/sign(sbp$coef))),
     ylim = c(0, max(dbp$coef/sign(sbp$coef))),
     xlab = "SBP effect [mmHg]", ylab = "DBP effect [mmHg]",
     las = 1)