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This is the underlying assumption of common linear regression based methods used for QTL mapping in outbred crosses [ 25, 26].
Therefore, here and in any other application of QTL mapping in outbred populations, one needs to remain aware that spurious associations may occur.
For genome and QTL mapping in outbred plants, TGOP is more informative than any other pedigree used so far in the genus Picea [ 14].
In conclusion, MAPfastR is a comprehensive, fast, and accurate software that is able to perform various methods for QTL mapping in outbred line-cross data.
However, model development for QTL mapping in outbred populations, a group of species of great environmental and economical importance [ 26], has not received adequate attention.
Although statistical models for QTL mapping have been well developed since the publication of Lander and Botstein's 3 seminal paper, the model development of QTL mapping in outbred populations, a group of species of great environmental and economical importance, has received limited attention.
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A number of genes and loci controlling other complex traits have already been mapped in outbred stocks, and studies on arthritis in both mice and rats are on the way [ 87, 91, 92].
When QTL are mapped in outbred populations, it is important to account for background genes, which are modelled as polygenic effects here, because the background genes may cause spurious associations between the markers and the trait (see Meuwissen and Goddard [ 13], for a review).
QTL mapping was performed using the rank-based nonparametric option of the previously described HSQM software for QTL mapping in multiple outbred half-sib pedigrees [ 43].
Deriving eQTL profiles for each of 20,000 probes is a computationally prohibitive task using publicly available software for QTL mapping in crosses of outbred lines [20].
For example, Sillanpaa and Arjas (1998, 1999) advanced a fully Bayesian treatment for multilocus interval mapping in inbred and outbred populations derived from two founders.
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