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The undifferentiated phenotype of wt and EcadAb ES cells was further verified by transcript expression analysis of Oct3/4, Nanog, E-cadherin and Sox-2 ((Figure 4C i) and (ii) respectively).
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The latest generations of microarrays, like exon arrays or tiling arrays, address transcript expression analysis by an increased number of probes and respective selection of probe sequences.
CAP37 protein expression in the temporal and frontal lobes of patients with AD and normal controls was analyzed by Western blot to confirm transcript expression analysis.
For gene and transcript expression analysis, see [ 13].
Differential transcripts expression analysis is performed with the Cuffdiff program.
We observed 2934 differentially expressed transcripts by digital gene expression analysis in which 781 (26.61%) transcripts were up regulated in root with log 2 Fold Change value of more than 4 (Additional file 3: Table S6).
For the comparison between tissues, we treated the three time points sampled as biological replicates, estimated transcript-wise dispersion values, followed by differential expression analysis with edgeR's exact test [ 117].
These unchanging transcripts are filtered out by traditional gene expression analysis.
This hypothesis was confirmed by expression analysis.
Subsequent validation of the selected transcripts by RT-PCR based expression analysis not only confirmed the quality of the assembly, but also allowed us to find out those rare transcripts which remained previously un-noticed, as mentioned in the text below.
YZ and JC mapped transcripts and did expression analysis.
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