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These discrepancies may be attributable to insufficient markers, genetic drift or recombination events (Figure 5).
The small (p) chromosome arm of acrocentric chromosomes (Phillips and Rab 2001) is usually uncharacterized in mapping studies because there are often insufficient markers describing this region.
Too many markers can increase genotyping errors and overestimations of population sizes [ 30] while too few or insufficient markers would leading to underestimations [ 31].
The short (p) arm of an acrocentric chromosome is usually uncharacterized in mapping studies because there are often insufficient markers describing this region (Brieuc et al. 2014).
Too many markers can increase genotyping errors, false genotypes, and overestimations of population sizes [ 30]; while too few or insufficient markers would lead to underestimations [ 31].
The number of linkage groups observed in this study is larger than the number of haploid chromosomes in the diploid species (n = 10), which may be due to insufficient markers for the chromosome coverage.
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Insufficient marker density of the applied SNP-chip (50 k) could be a possible reason.
However, insufficient marker density and insufficient sample size to detect genetic variants with small effects on blood pressure were thought to be limitations of the BRIGHT study.
Comparison between different QTL studies in cotton is generally complicated by insufficient marker synteny between maps and the lack of sufficient bridge markers.
The genetic map was built from 1,525 SNP markers, and it is therefore unlikely that insufficient marker coverage was the cause of short LGs.
It should be very helpful to distinguish between unlinked fragments due to insufficient marker density, Robertsonian polymorphism and pseudolinkage in future studies.
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