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The average marker density based on unique loci ranged from 0.4 (4R, 6R) to 4.9 cM (1A).
Reported marker density based on in vivo method is relatively less on every chromosome, for example 12th chromosome has just 37 [ 12].
We also determined that it may be reasonable to consider specifying values for s for one marker density based on a previous estimate from another marker density by taking into account the inverse relationship between s and marker density.
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The commercially available Mimics software package (Materialise NV, Heverlee, Belgium) was used for a density based segmentation and reconstruction of the different metallic markers and neurovascular structures.
If this is deemed to be computationally intractable relative to the marker density, then extrapolations based on analyses based on lower marker densities might be pursued, similar to those presented in this paper.
At the highest marker density, genomic prediction based on IBS information (IBS-GS) was slightly superior to that based on IBD information (IBD-GS), while at lower densities (≤100 SNPs/M), IBD-GS was more accurate.
The marker density varied across the FLW chromosomes based on physical distance in kilobase.
The additional loci accounted for by 2b-RAD genotyping resulted in a final marker density of 2.24 markers per cM, based on the estimated 450.8 cM map of the Kas-1 × Tsu-1 RIL population.
The variability of LD measured by ROH decreases as the marker density increases, whereas variability of LD based on r is unaffected by the number of markers [ 11].
This means that for predictions based on intermediate marker density (50 k) and GBLUP, it is currently necessary to use breed-specific reference populations.
We also confirmed that the sex locus is situated downstream of SSR marker VVIB23, while previous studies, based on a lower marker density, had placed it upstream [ 17, 20].
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