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To further support the functional importance of the predicted elements we compared elements found with the oligonucleotides already known to attract RNA binding factors actively involved in splicing.
To investigate whether the functionally related enhancers discovered in this study can be classified based on their shared conserved sequence elements, we compared the 23 enhancers that drove neuronal expression in the SOG of adult Drosophila.
To further understand the evolutionary origins of SIDER elements, we compared their sequence composition to that of the T. brucei SIDERs (TbSIDERs) and the L. major Degenerate ingi/L1Tc-Related Elements (LmDIREs).
In order to test the biological relevance of predicted cis-acting elements, we compared the sequence similarities between the predicted elements with the known binding sites of RNA binding proteins, from documented binding sites for 14 proteins [ 23], and predicted binding sites from splicing regulator prediction databases [ 24, 25].
To confirm specificity of the most Treg-specific regulatory elements, we compared active regulatory elements across a number of tissues and immune cell populations identified by ChIP-seq and DNase-seq by the Epigenome Roadmap and ENCODE consortia (Bernstein et al., 2012).
To further analyze the distribution of wanderer genes on the F elements, we compared the genome assemblies of six Drosophila species (D. melanogaster, D. yakuba, D. erecta, D. virilis, D. mojavensis, and D. grimshawi) using the UCSC Chain and Net protocol (Kent et al. 2003).
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In addition to the demonstration by phylogenetic analyses targeting both the RT and EN domains that SR3 is an RTE like element, we compared the structural motifs and domains of SR3 with RTE-1 of C. elegans and SR2 of S. mansoni in order to confirm the identity of SR3 as an RTE clade non-LTR retrotransposon.
Using BLAST searches of the NR and Swissprot databases we were able to identify a large number of putative unique gene elements (unigenes), which we compared to those derived from previous transcriptomic surveys of the larval stage of Heliothis virescens.
We describe both autonomous and non-autonomous transposable elements, and we compare and contrast popular transposon systems.
To briefly consider naturalness at an element-values level, we compared findings from the new personae with the textual content and frequency analyses.
Whilst there may be an element of error we compared our data to aggregated national level official statistics which showed just 1.4%% fewer overall alcohol outlets in our dataset.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com