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As in other tiling array data, the probe intensities of the data, which were supposed to represent the same transcript unit, were highly varied due to the heterogeneous probe affinity (Figure 3A) [27].
One of the major problems with tiling array data analysis is that the intensities of the multiple probes representing a given transcript unit (a transcript isoform) or annotation unit (such as an exon) are highly variable [27].
and high impact (~0.28%) changes in the transcript unit.
For the computational detection of each transcript unit, we iterated the following four-step process.
This could in part be the result of unassembled segments of TCs and sESTs pertaining to the same transcript unit.
The TARs that were joined by at least one set of paired-end reads were connected into a transcript unit.
Similar(41)
We have explored this route by studying the occurrence of HREs upstream of 23,391 multi-transcript transcriptional units and 22,658 single mapped transcripts (see Material and Methods).
Transcript units with a q<0.0001 were deemed differentially expressed.
Operons, as well as single genes that were not assigned to any operons, were regarded as transcript units (TUs).
A total of 27 modules were identified from 1255 differentially expressed transcript units (TUs) across time course, which were further classified in to four groups.
According to the common definition, both operons and genes not assigned to any operons, were regarded as transcript units, and the average expression value of within-operon genes was adopted to characterize the expression profile of the operon.
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