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PHAST was used to conservatively identify intact or mostly intact prophage within the genome.
Using a combination of transcriptional profiling and genome-wide binding analysis we conservatively identify over 1000 high confidence direct Dichaete target genes in the Drosophila genome.
To conservatively identify genes whose transcript patterns changed with Pi availability, only differences in the 40-ΔCt value of greater than two were considered, corresponding to a four-fold difference in transcript abundance [ 31].
Thus, the 12.5k sequences likely underestimate the total number of viruses in the dataset (since we miss those with unrecognizable capsid genes), but should conservatively identify active infections that represent some combination of lytic infections, prophages and chronic infections.
> To confidently and conservatively identify primary piRNA clusters, we first restricted our data to only the uniquely mapped reads, which left 20.5 23.9% of the reads in each strain.
It may be desirable to treat multiple highly overlapping, non-equivalent domains as a single domain, however, we conservatively identify exact repetitions of a domain across resolutions since this setting serves as a lower bound on the persistence of the domain.
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So JMB very conservatively identified these questions.
In 1975 the US DOT conservatively identified a 0.7% reduction in traffic fatalities during DST, and estimated the real reduction at 1.5% to 2%, but the 1976 NBS review of the DOT study found no differences in traffic fatalities.
We obtained 225 Mbp of 454-titanium pyrosequence data from the SAC community and conservatively identified 800 genes encoding glycoside hydrolase domains that were biased toward depolymerizing grass cell wall components.
Guided by Figure 1, we conservatively identified pairs of X. laevis paralogs for 2218 of the LT genes.
Using MSATCOMMANDER [ 50] we conservatively identified 169 microsatellite repeats among our contigs and singletons (Additional file 6).
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