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QTL positions (corresponding to relevant introgression regions identified in the IL experiment and to the 2-LOD drop supporting intervals computed for the F2 and BC1 populations) were projected using MapChart 2.2 [ 68] with cM distances based on the maize reference map 'Genetic 2008' available at http://www.maizegdb.org.
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Uniformly distributed samples are generated for truncated random variables in the supported intervals and design variables in the specified intervals to approximate cover the entire uncertain space fully.
As Pronto supports probability intervals, the intervals specified in the Profile management Subsection can be used.
The confidence intervals around each significant QTL peak were determined using 1.8-LOD support intervals (Broman et al. 2003).
Over 700 and 400 genes were predicted in the RAP-DB within the support intervals of DRO4 and DRO5, respectively.
The black bar above the linkage map indicates 1.8-LOD support intervals calculated by using the lodint function in R/qtl.
Triangles and boxes to the right of each linkage map represent LOD peaks of putative QTLs and their 1-LOD support intervals (van Ooijen 1992), respectively.
Arrowheads and boxes represent LOD peaks of putative QTLs and their 1.5-LOD support intervals (Dupuis and Siegmund 1999), respectively.
Support intervals were calculated using R/QTL with a 97% Bayes credible interval [70].
2-LOD support intervals were established as 95% confidence intervals [41].
The two-lod support intervals for the QTL detected in both trials were 58 67 cM.
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