SNP genotypes on HapMap founders from the CEU population
for SNPs spanning the GIMAP5 gene.
Usage
data(GIMAP5.CEU)
Arguments
Format
GIMAP5.CEU is a list with two elements: snp.data and snp.support.
snp.data is a SnpMatrix
object containing the SNP genotypes. Rows correspond to
subjects and columns correspond to SNPs.
snp.support is a data frame with the following columns:
[,1]
dbSNPalleles
character
alleles at each SNP
[,2]
Assignment
character
same as dbSNPalleles
[,3]
Chromosome
character
chromosome (chr7 for all)
[,4]
Position
numeric
physical position
[,5]
Strand
character
strand (all "+")
Details
SNP genotypes from HapMap release 27
for SNPs in a 10KB region spanning
the GIMAP5 gene. Data are on founders from the CEU population,
described as Utah residents with Northern and Western European ancestry
from the CEPH collection.
Only those SNPs with minor allele frequency greater
than 5% in all populations were retained.
The base positions are from NCBI build 36
(UCSC genome hg18).
References
The International HapMap Consortium. A haplotype map of
the human genome. Nature 437, 1299-1320. 2005.