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For replicate removal of same named mRNAs, in each case the first mRNA within each replicate group was selected.
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These results indicate that the data trimming and duplicate removal didn't change the NGS dataset profiles unexpectedly, and the reads distribution within trimmed data with replicates removed should be representative of the transcriptional profiles of the original datasets.
Pocket gopher populations were intensively live-trapped in replicate control and removal sites in natural and orchard habitats at Summerland and Vernon, British Columbia, Canada.
Samples were then averaged across two dye flip replicate pairs with removal of zero/dropped values using locally developed averaging software from the BEAR microarray suite (M. Datta, submitted).
Since our analysis rules require that at least two replicates must be significant, removal of one replicate in the HFA screen prevented the classification of these genes as a hit.
However, it should be noted that while the triplicate data of the SRSF screen means that errors present in a single offending replicate could be removed, the removal of edge effects in the HFA data leaves only one (or sometimes zero) remaining data point(s).
The detection of killing of nonreplicating bacteria poses a challenge for high-throughput assays in which the readout is based on failure to resume growth in replicating conditions after removal of the compounds.
Theoretically, the telomere replicated by leading strand synthesis can be replicated fully to generate a blunt end, while the other end will be left with a small gap at the 5′ end of the newly replicated strand after removal of the terminal RNA primer.
After the removal of replicate read pairs, coverage calculations indicated the expected number of MPs covering a breakpoint.
Following the removal of replicates, 713 were found and evaluated (figure 1).
In addition, the data were resampled with the jackknife technique using a traditional search with a 36% removal probability replicated 1,000 times.
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