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Thus, this gene uses a specific TSS during the neuronal differentiation.
Thus, these six genes regulated their expression levels in the brain using a specific TSS in each gene.
It might be that the positive correlation between the presence of a TATA-box and the presence of a specific TSS is not as strong in mouse promoters, although one cannot exclude the existence of other sequence motifs effecting TSS specificity.
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This was made possible by combining this highly specific TSS determination technique with the use of mutants affecting both the nuclear exosome and the cytoplasmic NMD pathway.
Recently, it has been suggested that DNA methylation of CpG sites near specific TSSs coding for individual isoform variants may be an alternative regulatory mechanism [ 18].
Thus, it seems that these four genes regulated their expression levels in the immune system tissues by using specific TSSs.
Considering the tags mapping to the 5′-UTR, we annotated more than 34,000 Myc and more than 45,000 S1-Pri specific TSSs (79,000 total) of more than 3,000 genes.
To conclude, we estimated that exons whose inclusion in the mature mRNA is correlated with specific TSSs are rather common, i.e. they represent at least 15% of all internal cassette exons.
In the present study, a genome-wide search revealed nine genes with tumor-specific TSS usage in neoplastic colorectal tissue samples.
Comparison of TSS distributions of cCGIs and eCGIs illustrates different strengths of the two approaches: although cCGIs capture TSSs that are constitutively active in a broad number of tissues, eCGIs excel at identifying tissue-specific TSS (Fig. 5A).
Furthermore, we provide evidence for coordinate and stage-specific TSS usage from distinct sites within the same transcription unit, thereby producing transcript isoforms, a subset of which are developmentally regulated.
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