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Genes from 8 previously reported marker panels were included.
Using In, four marker panels were constructed which contained either the most informative or least informative SNP.
Two alternative marker panels were utilized to classify colorectal tumors as CIMP or CIMP.
For comparability, MDS analyses for other marker panels were carried out with two or four dimensions, respectively.
As no consensus exists on how to score CIMP and no single panel is superior to others [ 13], three different marker panels were considered.
Methods for genomic selection using low-density marker panels were introduced and applied to a dataset from a sire breeding line in pigs.
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In most breeding programs, single nucleotide polymorphism (SNP) marker panels are used.
However, maximization of long-term genetic gain in genomic selection based on marker panels is not well understood [ 7].
It was shown that imputation from low- to high-density marker panels is a promising strategy, even if the low-density panel contains less than 1000 markers.
Genomic selection with imputation from very low- to high-density marker panels is a promising strategy for the implementation of genomic selection at acceptable costs.
However, when very low-density marker panels are used (384 markers), then it may be better to exclude markers with uncertain positions from the marker panels in order to improve imputation accuracy and phasing for the remaining markers.
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