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When coupled with the advent of high throughput genotyping methods, an opportunity now exists for potato breeders to incorporate considerably more genotypic data into their decision-making.
More accurate genotype imputation methods exist, e.g. [ 6– 9], and it is expected that such methods will become increasingly more appropriate as more genotypic data accumulate.
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However, for larger numbers of populations (as here), and where more limited genotypic data are available, an alternative is to use a measure of pairwise genetic differentiation between populations such as FST (Weir and Cockerham 1984) as an estimate of their expected covariance (Stone et al. 2011).
Finally, as more and more genotypic and phenotypic data on the HapMap samples are made publicly available by researchers worldwide, sharing and cross-referencing these datasets will be difficult.
This is in agreement with the results reported by previous authors [ 50, 51] and with the proposals of Rosenberg et al. [ 52] who argued that STRUCTURE uses individual genotypic data more efficiently than phylograms based on genetic distance matrices.
As technologic progress enables the rapid increase of available genotypic data and more breeds encompassing additional aspects of bovine genetic variation are studied in detail, methods like the ones we are proposing here will undoubtedly play a pivotal role in the future of livestock production.
Since its establishment in 2003, PopGen-KIEL has assembled a collection of biomaterials, phenotypic and genotypic data from more than 60 000 individuals.
This is also reflected by the genotypic data (described in more detail below).
The procedure to order one gene relative to another using gene expression and genotypic data can be more systematically applied to hundreds or even thousands of traits to reconstruct whole gene networks (Zhu et al. 2004).
Our map comprises more than 2200 markers populating 25 linkage groups constructed from genotypic data generated from a single genotyping-by-sequencing project.
Additional file 2: Genotypic data of a maize diversity panel with more than 245 kb SNP GBSS + Illumina).
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