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Adams calls for amplification.
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A number of other studies report more sophisticated methodologies for RRA detection, but they still rely on arbitrary calling for amplifications and deletions [11], [15] [17].
Notably, in this pooled analysis (Additional file 2: Figure S10), ENVE exhibited high concordance rates with the SNP array calls for both amplifications (97.72 %) and deletions (92.86 %), as compared to the matched normal analysis, further suggesting that ENVE remains a viable methodology for reliably detecting sCNAs in tumors even in the absence of a matched normal sample.
For each sample the data was segmented using the CBS algorithm, and a sample-adaptive threshold (SAT) was calculated to obtain a sample-specific cut-off for calling of amplifications and deletions.
In 1928, John Dopyera, a Czech immigrant in Chicago, invented a wood-body resonator guitar with a metal cover plate over the sound hole and an aluminum cone for amplification and called it the Dobro -- a trademark compression of "Dopyera Brothers" and also, by a happy portmanteau coincidence, the Slovak word for "good".
Focal events inside broad events represent a challenge for methods that are based on thresholds for the binary calling of amplifications and deletions, once the entire broad region can be considered significant, hence hidden the focal events.
Five genes called as "absent/divergent" were also targeted for amplification but could not be amplified (data not shown).
MLPA data analysis and interpretation are critical for calling real amplification or deletion events in each chromosome region.
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