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Effect of SNP on transcription factor binding sites was analysed using Consite [25].
The binding of SrbA to five predicted binding sites was analysed.
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As a starting point of a more detailed analysis of the evolution of prenyl converting enzymes, diphosphate binding sites are analysed.
Further, GATC-containing TF binding sites are analysed in order to correlate any gene expression changes to Dam binding.
Functionality of promoter and putative FurB binding sites were analysed by β-galactosidase activity assay.
The genomic distributions of binding sites were analysed using the cis-regulatory element annotation system (CEAS) (Ji et al., 2006).
The Axl regulatory regions and the putative AP-2 binding sites were analysed by using the ENSEMBL bank database [ 22] and the canonical AP-2α PWM [ 42].
Considering (1) the close structural similarity with other active flavones, (2) the activity of some of its glycosilated derivatives and (3) the complexity of flavonoid effects in the central nervous system, luteolin was submitted to a battery of tests designed to evaluate its possible activity upon the CNS and its ability to interact with the BDZ-receptor binding sites was also analysed.
DA D1, D2 and NMDA-receptor binding sites were quantitatively analysed in the ipsilateral and contralateral striata in the following groups of rats: unlesioned, 6-OHDA-lesioned, 6-OHDA-lesioned receiving wild-type or DATKO grafts, l-dopa-treated 6-OHDA-lesioned dyskinetic rats and 6-OHDA-lesioned dyskinetic rats receiving wild-type or DATKO transplants.
In that work ChIP-seq analyses of LexA binding sites was complemented with experimental measurements of gene expression upon DNA damage induced by mytomycin C. The 12 genes that we assign to the LexA regulon contain a site in their upstream regions where LexA binding was detected.
Analysis of putative transcription factor binding sites was carried out using the database PLACE [ 24] coupled with visual analyses.
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