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We have previously used a panel of >1400 genotypic markers selected for high differences in frequency between European Americans and West Africans [16] to estimate African ancestry across the genome of 4464 individuals.
The AUC was 0.90 for all the patients, with no significant differences in frequency between trauma patients and non-trauma patients (P = 0.128).
No differences in frequency between individual SNPs or combinations were found between TB cases and controls in either cohort.
Randomization tests support differences in frequency between wild and laboratory vocalizations and the strength of the difference depended on how many individuals were assumed to be vocalizing in the laboratory colony.
Table 2, Table 3, Table 4 and Table 5 (Original SLP data columns) show the percentage differences in frequency between the results obtained from the CGCMs and those obtained from the NCEP/NCAR reanalysis data for the different seasons: winter (Table 2), spring (Table 3), summer (Table 4) and autumn (Table 5).
Many alleles show differences in frequency between hosts.
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Overall, the mean absolute difference in frequency between SNPs in the 1000G and PAG2014 data are 0.08, and it is greater at the HLA genes with the greatest levels of nucleotide diversity (HLA-B, -DQB1 and -DRB1 all deviate by ± 0.1 ).
A third study of 223 children from Ibadan in Nigeria was unable to detect a significant difference in T1264G frequency between children with severe disease and those with asymptomatic parasitaemia (18).
Interestingly, the case control study for these 10 SNPs with significant differences in allele frequencies between the 2640 patients with GD and 2204 control individuals has more than 99.5% statistical power to detect a SNP with an α level equal to their reported p value, corresponding to relative risks of 1.5 for GD (Table 4).
We also dichotomized smoking quantity to reflect 'light' (1 9 cigarettes per day) and 'heavy' (10+ cigarettes per day) smoking, because the previous study found the largest difference in allele frequency between equivalent categories (10) We assessed the association between this variable and the number of risk alleles using logistic regression.
We found a significant correlation between SNP heterozygosity and the absolute difference in frequency between 1000 Genomes data and our gold standard.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com