Suggestions(5)
Exact(8)
To help avoid any interference of possible false negative binding sites by these "lesser" peaks in the benchmark, we further limited the negative regions by ignoring regions that was defined as a peak by any of the peak calling methods in any of the replicates.
Moreover, the log virus ratio did not drop below approximately −0.3 (approx. 35% Wt virus) in any of the replicates.
Finally, using a birth-death process prior, the rate and root age could not be recovered in any of the replicates (Additional file 3: Figure S3).
If any of the replicates gave more than 3% difference in any one allele, the experiment was repeated, or this replicate excluded.
In the control groups infected with sterile saline buffered solution no larvae died in any of the replicates (data not shown).
Finally, it should be noted that, in order to cover all possible targets regulated by Slr1037, we used a relatively low criterion in determining responsive proteins, and the proteins differentially regulated in any of the replicates were reported.
Similar(50)
Data for each infection method were pooled, and proteins with five or more quantified peptides from any one or all of the replicates were considered quantified.
There were no significant increases in life span in control flies treated with RU486 in any of the replicate experiments.
Finally, many analyses considering replicate precision exclude measurements with no signal in any one of the replicates.
Under the assumption of the mixed model in (1), D is the paired-differences variate based on any one of the replicates, D = (y ijl - y ij'l' ), and hence κ p based on D is actually known as the total-TDI for evaluating total agreement [ 12].
*indicates one condition where we could not detect any Pi in one of the replicates; instead of using 0 we used the lower of the two other trials.
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