Tests of homogeneity of the ORs across strata were assessed using a likelihood ratio test. The associations between SNP genotypes and PSA level were assessed using linear regression, after log-transformation of PSA levels to correct for skewness. In a case-only analyses, Cox proportional hazards ...
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Due to the low transformation rate of the markers in our study, we preferred to test the performance of individual markers first; however, many approaches are available to program a pipeline in advance to test marker combinations in silico [22, 40, 41]. Given that the assumptions of a 100...
In addition, the representation of the first and third clusters in managed cacao likely reflects gene introgression from the Pound Collection. The collection includes accessions MO, IMC, NA, SCA, and PA collected in the Peruvian Amazon while searching for trees resistant to WBD (Zhang et al.2011...
We did not run this analysis on the entire base was subjected to the acceptability test employed by ENCODE dataset because for computational SNPs that do SNPdetector, which evaluates its short-range and long-range not have genotype data, we had to manually review sequence quality score ...
Using Pearson chi-square test or Fisher’s exact probability (for categorical variables), the variations in frequency distribution of genotypes and demographic characteristics were assessed. The association strength was calculated applying odds ratios (ORs) and 95% confidence intervals (CIs). All ...
The aim of this study was to test such associations between eight single nucleotide polymorphisms (SNP) from five different genes and meat quality traits in a sample of Aberdeen Angus-cross animals collected in Scotland. All the tested SNP have been previously reported to be associated with variou...
[32] and the Veracode technologies on a BeadXpress Platform [44], and genotyped a mapping population as well as a germplasm collection. This allowed us to test the suitability of this technique for a non-sequenced species, and to assess the efficiency of the defined SNP set for mapping or...
The objective of this study was to test an earlier hypothesis that ‘Keepsake’ is one parent of ‘Honeycrisp’16 and to identify and genetically describe the unknown parent and grandparents of ‘Honeycrisp’ using a much larger set of DNA markers than was previously available with this germplasm...
“GoldenGate Genotyping Assay for VeraCode Manual Protocol” (Illumina Inc., San Diego, USA). The 96 samples were a subset of the collection previously used for Infinium genotyping. Automatic allele calling for each locus was accomplished using the Genome Studio software (Illumina Inc., San ...