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The design of the BMHC creates three distinctly altered segments: a flooded section upstream of the main dam, a middle section between the dam and the main powerhouse that will be dewatered, and a downstream section subject to flow alteration from powerhouse discharge.
In the Chin et al. [19] individual copy number altered segments showed association with survival and disease recurrence, but performed unevenly.
The expression of genes within these altered segments has been demonstrated to be correlated with the copy number state of the region [3], [9], [12], [13], [14], [15], [16], [17], [18], [19].
Joining algorithm was applied for copy-number altered segments interrupted by <200 kb normal state data.
First, copy-number altered segments falling below the noise thresholds in the normal normal comparisons (Figs. 2 and 3) are selected for noise modeling.
The frequency with which each of the chromosomal windows is covered by copy-number altered segments at LogRatios ranging from 0 to 2 in increments of 0.05 is counted, both in the positive and negative directions.
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When the resolution is too altered, segment relative level below a certain threshold cannot longer be observed.
Without additional division, the altered segment can be permuted into a finite number of positions, constraining the model.
Relatedly, percent genome altered was calculated by adding the length of each "altered" segment, divided by the total length of the genome analyzed.
Tumours within the simple-profile subgroup appear similar to the BRCA1 and BRCA2 subgroups in terms of altered segment lengths but differ in that they display considerably less complex genomes.
Thus, any rearrangements recognized under the microscope were either numeric or an altered segment of the chromosome large enough so that the affected homolog could be easily distinguished from the normal homolog based on the overall size of the chromosome.
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