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Transposable element overlap for Known lncRNA transcripts.
Further improvements included optimized order of steps, element overlap detection, and data output.
M PEAK relies on the fact that multiple probes will bind the same chromatin fragment if the probes are designed to be close together along the genomic sequence, with maximal binding seen where the probe sequence and the binding element overlap.
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A rezoning step may be necessary in order to overcome element overlapping or crossing-over.
Reporter 3xGRAS-luc (GRAS: GnRH Receptor Activating Sequence) is a synthetic reporter, containing three repeats of a composite regulating element (overlapping AP1, Smad3 and Foxl2 binding sites) which is found in the murine promoter of the GnRH Receptor (GnRHR) and seems to contribute to the regulation of its expression in pituitary gonadotrope cells [29].
Pattern 1 DMRs exhibited a significant depletion of NCEC element overlaps (P <4 × 10-5, Figure 1).
Cyclosporine effective element overlaps the element and confers cyclosporine sensitivity to the cyclin D1 promoter (Schneider et al. 2002).
Crosstalk between GR and these transcription factors may occur either through composite response element, overlapping response element, or interaction between GR and transcription factors.
The core promoter consists of two key genetic elements: the TATA box (present in most promoters) and/or an initiator (Inr) element overlapping the transcription start site.
We calculated the average rate for each element as the sum of the rates of each 10 kb window overlapping the element, with the rate of each window weighted by the fraction of the element overlapped by the window.
If the position of a predicted variant-altered regulatory element overlaps a conserved region, then the cis-regulatory potential of the variant is considered to have functional support.
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