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Therefore, although they are considered questionable clones, if supported by molecular marker data they may be valuable for merging contigs.
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Seventeen individuals were removed from the population as the SNP marker data indicated they were potential pollen contaminants, resulting in a set of 572 true seedlings usable for map construction.
The remaining 51 DH lines were excluded based on examination of the molecular marker data: 43 because they seemed to be genetically identical to other lines in the population, 6 because the DNA samples representing those lines exhibited more than one allele for numerous markers, indicating possible contamination of the lines or DNA samples, and 2 due to possible errors in DNA extraction.
The marker data supported this theory as they showed slightly higher genotype inconsistencies in the additional animals (data not shown).
One strength of the marker data used here is that they reproduce levels of LD and a structure that occur within a real breeding program.
The ICD was developed by combining the marker data from the three individual populations.
Our large sample size and dense marker data afford great power for genome-wide association scans.
We confirmed the absence of recombination in these sensory cells by using antibodies against myosin VIIa, a cell type-specific marker (data not shown).
Goddard, M. E., Wray, N. R., Verbyla, K. & Visscher, P. M. Estimating effects and making predictions from genome-wide marker data.
Postural angles estimated with the MIMUs were compared with angles calculated using marker data from a gold standard motion capture system.
It takes as input genotype or haplotype marker data for individuals (as well as an optional known pedigree) and generates a list of all pairwise segmental sharing.
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