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To explore the effect of allele frequency on recombination estimates, SNPs were placed into 10 bins based on their minor allele frequency calculated using the global allele frequency of all populations together.
The known variants were further classified, based on their minor allele frequency (MAF) distribution in ESP6500 or 1000 Genome (≤0.001, and > 0.001).
For cases and controls, we define separately inverse frequency weights that weigh variants based on their minor allele frequency and combine these frequency weights with the information about the physical position of the variants.
Of all the 58960 SNP markers of the 50K array, we selected 12226 markers for the genome scan based on their minor allele frequencies and their distance to adjacent markers.
Because FST values are not independent from allele frequencies, we binned variants based on their minor allele frequency (MAF, 50 classes) and calculated the percentiles for each MAF class.
SNPs were selected based on their minor allele frequency (MAF ≥ 0.1) in the CHB population and haplotype-tagging SNPs were assessed using HAPLOVIEW 4.2 [ 32] under the parameter r ≥ 0.8.
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Because FST values are not independent from allele frequencies, we binned variants based on their MAF (minor allele frequency, 50 classes) and calculated the percentiles distributions for each MAF class.
Of 52,183 SNPs (52,077 SNPs on the 60 K chip [ 11] and 106 internally developed SNPs), 11,718 informative SNPs were selected for further analysis based on their call rates, minor allele frequencies, and Hardy-Weinberg equilibrium (HWE) tests (Methods).
Diving mishaps can be major and minor based on their potential to cause injury and the severity of the resulting injury.
An ordering of assemblies based on their average rank provides only minor differences to that of the z-score ranking (Additional file 2: Figure S10).
Additional Considerations Other Than Functionality: Although excipients are selected based on their intended functionality, many times, minor impurities associated with excipients bring unanticipated challenges to a drug product's long-term performance.
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