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We compared the location of human s-DMRs to genomic functional annotation, as defined by the ChromHMM segmentation analysis [ 67], using the HapMap line interrogated by Encode (B-lymphocyte GM12878 data).
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We tested for the presence of the inversions by examining lymphoblastoid cell lines from a diverse panel of great ape cell lines using the FISH assays established using the HapMap individuals.
The SNPs were selected to extract the most genetic information based on CHB haplotype data using the HAPMAP database (Hapmap Data Rel 27 Phase II+III, Feb09) [37].
We compared our Spanish frequencies to those of HapMap CEU subjects, using the HapMap minor allele as the reference (Figure 1).
LSBL in HapMap was calculated using the HapMap database that considers all African, European and Asian populations together.
We first compared the Daghestani and control populations with the HapMap samples (20 individuals each), performing a PCA using the HapMap SNPs from the neutral regions.
We restricted this evaluation to the two-step protocol using the HapMap phase II combined sample.
Other phenotypic data such as cell growth inhibition and/or apoptosis after drug treatment and drug metabolizing enzyme activity are being generated by various laboratories that use the HapMap cell lines as experimental models (Dolan, Newbold et al. 2004; Watters, Kraja et al. 2004; Huang, Duan et al. 2007; Huang, Duan et al. 2007; Huang, Kistner et al. 2007).
Using the HapMap-NIEHS overlapped SNPs; we indeed observe that the coverage is low in the NIEHS population as compared to the HapMap population.
We used the HapMap SNP genotyping data (from Release 28 of International HapMap project) for three population sets: CEU, YRI, and CHB plus JPT.
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