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In case of replicated publications from the same group, only the most recent publication was used for data-entry.
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In case of replicates, a list of bootstrap folders can be provided for each condition (one folder per replicate, normally with an equal number of bootstrap samples) - IsoDE will automatically merge the folders for the replicates to get a combined folder per condition, then perform the analysis as in the case without replicates.
Depending on the granularity of the server (single or replicated), the dynamically provisioned resources can be a whole machine in the case of replicated servers.
In case of biological replicates (i.e. more inputs are available from the same sample) they can be assigned to the same group and they will be analyzed together during the differential analysis.
On average 24.6 PA were present in both (or all three in case of triplicated samples) replicates (at least one read in each), and 4.6 in only one replicate (a PA must have been present in at least two reads in one replicate and in no reads in the second replicate).
Fold change cut-off, usually applied to microarray data in case of insufficient number of replicates, leads to large number of false positive.
Therefore, in order to draw practical implication, we can say that this study can be replicated in case of other regional blocks.
The LPE estimation was shown to be powerful and effective in case of a small number of replicate arrays [ 73].
The experiments were performed three times with five replicates in case of hyperplasial endometrial primary cells and with three replicates in case of normal endometrial primary cells.
However, an option for increasing quality of quantification in case of low amount of sample and missing replicated samples is to divide one sample into technical replicates and use more sensitive approaches like 2D fluorescent difference gel electrophoresis (2D-DIGE).
It was observed that the replicates in case of the combination 1/200 and 0.05 μg/ml varied less than those of the other combination.
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