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Computational topics include practical considerations and a case study in probe sequence design, the exploitation of probing multiple target regions, and the modeling of probe sequence‐specific signals.
Within each sample, multiple target regions can be analyzed.
For a large CNV spanning multiple target regions, we consider it as a true positive if an algorithm calls more than half of the regions positive.
Achieving identification at a high level of taxonomic resolution such as strains and/or pathovars typically requires incorporation of multiple target regions, each of which requires individual design and validation steps [ 4].
For detecting large CNVs spanning multiple target regions, we first perform circular binary segmentation (Olshen et al., 2004) on RLRs, using different parameters to achieve different resolutions of segmentation.
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In BSAS, the sequencing step is random and unbiased, thus multiple target genomic regions in one sample, and multiple samples, can be sequenced together on one flow cell.
The multiple target-specific regions from each sample were amplified by an initial PCR (98°C/1 minute; 25 cycles of 98°C/10 s, 72°C/10 s, 65°C/1 minute, 60°C/8 minutes, 65°C/3 minutes, and 72°C/30 s; 72°C/5 minutes; hold at 4°C) with 50 nM of combined multiplex primers.
On the other hand, the antenna location influences the level and distribution of the additional attenuation throughout a monitored area as well (mostly in the case of multiple target scenario when shadow regions are created).
Interestingly, the distribution of multiple SNVs within the target regions also had an impact on the capture bias (Additional file 3).
Although our method assigns hit regions to multiple target genes, it relies upon the definition of gene region in the annotations.
Furthermore, when multiple factors access the same target regions, STAP is able to disentangle the effects of confounding factors.
More suggestions(15)
multiple target locations
multiple target scenarios
multiple target ORFs
multiple target molecules
multiple brain regions
multiple ellipsoid regions
multiple target pathways
multiple target proteins
multiple target sets
multiple target organelles
multiple target miRNAs
multiple repeat regions
multiple target points
multiple target nodes
multiple target cells
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