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When we considered the data from all cell lines for which biological replicates were available we again found a significant difference across cell lines (Fig. 1b; p = 5.7×10−6 from a one-way ANOVA).
At time point 18, only two biological replicates were available.
Two independent RNA-Seq libraries, "biological replicates," were available for each condition.
Because three biological replicates were available only for stigma and ovary in the series GSE7951 dataset, only these data were used in this analysis.
Fold changes for some of the genes did not reach statistical significance when measured by RT-qPCR, particularly for the 24 hour time-point where only 2 biological replicates were available.
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The only exception was IR29 control samples for which for which only 2 biological replicates are available.
The corresponding calibrated signal intensities for 22,814 genes/probe sets and for two biological replicates are available from the NASCArrays repository, experiment no.
In addition, RNA-Seq data for seven developmental stages with two biological replicates are available under NCBI-GEO [ 83] series accession no.
It was also found that when RNA-Seq data from biological replicates is available, differential expression of numerous genes can be detected with high statistical significance even when the number of fragments per sample is reduced to 2 3 million [ 45].
We also found that when RNA-Seq data from biological replicates is available, differential expression of numerous genes can be detected with high statistical significance even when the number of fragments per sample is reduced to 2-3 million.
If a mass spectra time-series or biological replicates are available, ProbMetab uses third-party packages integrated downstream to export correlation or partial correlation graphs, along with their intersection/difference with the reaction graph.
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