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Our results showed a strong association of the genes asymmetrically expressed with previously published drought-QTL markers and markers selected in this study for selective genotyping.
The proteins identified include markers selected in the class prediction models as annotated (Table 2).
Only significant markers selected in the first stage remain for the following stages.
As expected, the number of markers selected in the prediction model decreased with more stringent threshold values of α.
In our experience reported here, we have not detected any ADO for the markers selected in each case.
Figure 10 illustrates the physical distances between the markers selected in our strict- λ (assuming h = 0.01) analysis and the markers identified by the GIANT Consortium.
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To increase the number of shared markers, selected SSRs placed in the cultivated map that had not been screened earlier for polymorphisms in the A-genome parents were screened and, when possible, genotyped and mapped in the A-genome.
The 69 markers selected were then typed in a trial set of 122 trio families.
Most likely, this reflects the same situation discussed previously: markers selected for being highly polymorphic in 9930 will produce amplicons of different and shorter size in Gy14.
With more markers available for selection, the possibility of highly collinear markers being selected in the prediction models is greater.
For the final map used in the QTL analysis, a subset of 162 markers was selected in such a way that no two markers were located in the same position so as to improve QTL detection.
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