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We have shown that there is substantial copy number variation in coding sequences in the C. elegans genome.
However, the observation of substantial copy number variation in C. elegans [ 53] suggests that it is probably most appropriate to apply a mutation rate calculation that includes indels, as we have done.
However, in both cases, these elements presented a substantial copy number (51 and 42 independent copies, respectively, totaling 90 and 52, respectively; see Additional file 1), most of them very similar.
Similar(57)
Even if such mutations are advantageous, they will not reach substantial copy numbers over the duration of the experiment.
Comparison of three strains with nearly identical genome sequences revealed substantial chromosome copy number variation, which may contribute to strain-specific phenotypic traits.
These observations confirm substantial subclonal copy number variations that occur rather late in tumor development, as reported by Nik-Zainal et al. Importantly, the analysis shows that ∼10% of the mutations detected in the hypermutated breast cancer genome are sufficient to predict the SP composition of this tumor at a resolution comparable with that obtained from the whole genome.
Since CNVs reported in the DGV are measured by a variety of methods such as high-density aCGH and direct sequencing in different populations this finding indicates that a substantial part of copy number variation is detectable by high density SNP-Chips.
More recently, NGS technologies have been utilized and offer substantial benefits for copy number analysis.
The few cases with substantial disagreement in copy number profile seem to stem from disagreement in the ploidy and were more common in specimens with low cellularity.
Although substantial differences in Hps copy number were detected by CGH, quantifying the number of Hps copies in a particular genome was not possible since hybridization intensities were not calibrated.
50 ng of gDNA is equivalent to 4,630 triploid cells, giving a viral load in SiHa of 37 copies per cell, a substantial overestimate of the copy number demonstrated by Southern blotting.
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