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Each Lucidea transcript bound to a specific Lucidea calibration control element present on the microarray.
A genome region covered by a cluster of PAR-CLIP reads is assumed to encode a transcript bound by the RBP if a certain percentage of all reads of the cluster, e.g. 20%, contain T C mutations [ 22].
Genes that are expressed at the same level in both sexes will have equivalent amounts of transcript bound to probes and so the signal will be a combination of both Cy3 and Cy5 signal thereby generating a signal intermediate between the two (yellow fluorescence).
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Furthermore, each cDNA transcript binds a single dendrimer and each dendrimer has a predetermined number fluorescent molecules.
It has been reported that the SEPT4 isoform encoded by this transcript binds to and can modulate the function of XIAP and thus promote apoptosis (Gottfried et al, 2004).
Information on mRNA abundance, transcriptional rate, transcript half-life, transcripts bound to RNA-binding proteins, protein abundance, protein half-life, translational rate, overexpression phenotype, and data on genetic background that enhanced protein aggregation were all obtained from published literature (see Table 1).
Information on mRNA abundance, transcriptional rate, transcript half-life, histone modifications, transcripts bound to RNA binding proteins, 5′UTR length, RNA secondary structure, and codon bias for S. cerevisiae was obtained from Holstege et al.
These techniques have revealed a significant overlap between transcripts bound by different RBPs, establishing RBP-directed networks of post-transcriptional regulation and uncovering an unprecedented potential for combinatorial control.
Interestingly, 80% of transcripts bound by mutant FUS were also bound by WT FUS.
The number of transcripts bound by given RBPs together with the diversity of RBPs that can bind a given transcript provides an enormous capacity for combinatorial control.
(2011) found many cases of non-coding transcripts bound to ribosomes and suggested that this facilitates the evolution of novel protein-coding genes from non-coding sequences.
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