Sentence examples for use the hapmap phase from inspiring English sources

To estimate the power for predicting deletions, we use the HapMap Phase 1 CEU, Phase2+3 CEU and AGRE autism data; this selection fixes the allele frequencies.

In order to verify this finding using data from a larger genomic region, we repeated the same analysis using the HapMap Phase II data for more than 200 SNPs spanning approximately 100 kb centered on the NAT2 coding region [23].

We restricted this evaluation to the two-step protocol using the HapMap phase II combined sample.

We used the HapMap phase 3 European population (CEU) chromosome 12 [ 18] phase-known dataset that has been created for each family trio in the database.

Genome-wide imputation was done using the HapMap phase I-II CEU data (release 22, NCBI build 36) as the reference sample and MACH software.

BATS and ALSPAC had been genotyped using Illumina® 610k Quad Bead and HumanHap 550k Quad chips, respectively, and imputed using the HapMap Phase II CEU reference panel (NCBI build 36) (The International HapMap 3 Consortium, 2010).

We calculated genetic distance to the centromere for all SNPs using the HapMap phase II genetic map (Frazer et al. 2007) and gaps in the assembly annotated as centromeres by the UCSC Genome Browser (http://genome.ucsc.edu/), using build HG18.

Markers imputed using the 1000 Genomes reference sample tend to have INFO scores higher than those imputed using the HapMap Phase II combined reference panel for all the frequency bins.

The INFO scores based on the two-step imputation method using the HapMap phase II combined and the 1000 Genomes (June 2011 release) reference panels were compared for different allele frequency categories, grouping markers in 5% bins.

Genomic coverage was extended to ∼2.5 million common SNPs by imputation using the HapMap phase II CEU data (NCBI build 36 (UCSC hg18)) as the reference sample and MACH software.

Population stratification was assessed with Eigenstrat and SmartPCA (both available from http://genepath.med.harvard.edu/∼reich/Software.htm) using the HapMap phase 3 Release 27 data (Price et al. 2006).