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An attractive approach for studying transcriptional regulation at the genomic scale is to use transcription factor activities (TFAs) to represent gene expression dynamics.
However, the binding affinities are difficult to measure and related works use transcription factor occupancy to approximate binding affinity [4], [5].
To this purpose we use transcription data of Sinorhizobium meliloti.
ILC1s comprise IFN-γ-secreting ILCs that use transcription factor T-bet for lineage commitment.
Remarkably, unlike all previous reports that use transcription factors, their approach uses only microRNAs (miRNAs).
In the future, a better approach would be to use transcription start sites instead of start codons to define upstream promoter sequences for motif discovery.
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These two assays use transcription-mediated amplification technology.
One way to find evidence for differential transcription factor activities is to use transcription-factor binding-site (TFBS) enrichment analysis [ 36].
To examine the contributions of transcriptional and non-transcriptional mechanisms in RU and RR cells, we used transcription inhibitor Triptolide.
Thus, the authors encourage researches to continue using transcription.
Chen et al. [22] used transcription factor microarray analysis to demonstrate that at least 30 transcription factors in Arabidopsis were induced by abiotic stress.
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