skatMeta (version 1.4.3)

SNPInfo: Illumina HumanExome BeadChip SNP Information file

Description

Contains standard Names and associated genes for the Illumina HumanExome BeadChip

Usage

data(SNPInfo)

Details

There are several non-exonic SNPs included. For these SNPs the `gene` name is the same as the illumina variant name.

References

Grove ML, Cochran BJ, Haritunians T, Bis JC, Taylor KD, Hansen M, O'Donnell CJ, Rotter JI, Boerwinkle E, CHARGE Exome Chip Genotyping Committee; Best practices and joint calling of the Illumina HumanExome BeadChip: the CHARGE consortium; (Abstract/Program #1445W). Presented at the 62nd Annual Meeting of The American Society of Human Genetics (ASHG), November 7, 2012, San Francisco, CA.

Grove ML, Yu B, Cochran BJ, Haritunians T, Bis JC, Taylor KD, Hansen M, Borecki I, Cupples LA, Fornage M, Gudnason V, Harris T, Katherisan S, Kraaij R, Launer LJ, Levy D, Liu Y, Mosley T, Peloso GM, Psaty BM, Rich SS, Rivadeneira F, Siscovick DS, Smith AV, Uitterlinden A, van Duijn CM, Wilson JG, O'Donnell CJ, Rotter JI, Boerwinkle E. Best practices and joint calling of the Illumina HumanExome BeadChip: the CHARGE consortium. PLoS One [submitted]

Examples

data(SNPInfo)

##summary of the data set:
summary(as.numeric(table(SNPInfo$SKATgene)))
hist(table(SNPInfo$SKATgene),nclass = 300,xlim=c(0,50),
	main = "SNPs per gene", xlab ="#SNPs", ylab = "#Genes")