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Such fragmented sequences are less useful for differential expression analyses as the statistical power is less for smaller sequences [ 48].
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Normalized read count data were used for differential expression analyses.
HTSeq-DEseq workflow was used for differential expression analysis [ 84].
The statistical method used for differential expression was NOISeq [ 42].
In regard of limiting cell numbers a two step extraction procedure (HEPES buffer followed by UTC) was proven to be useful to display a higher amount of peaks for differential expression analysis.
(i) For differential expression we used the following steps.
In addition, posterior odds statistics have proven to be a useful means of ranking variables in terms of evidence for differential expression [ 59, 62- 65].
To test for differential expression, two statistical methods were used.
TREAT should prove especially useful in analysing microarray experiments in which there is a large amount of differential expression by testing formally for differential expression that is not only statistically significant but also biologically meaningful.
Genes were ranked for differential expression by moderated t-statistics.
21,480 transcripts were analyzed for differential expression.
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