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At the level of isoform characterization, we discovered widespread differences in the use of tandem alternative polyadenylation (APA) sites by methylated and nonmethylated transcript isoforms of individual genes.
(A) Bar plot showing the distribution of the number of transcript isoforms and predicted ORFs per gene.
Global Proteome Remodeling during ER Stress Involves Hac1-Driven Expression of Long Undecoded Transcript Isoforms.
Consistent with published Smart-seq profiles, our mRNA data showed full coverage of the transcript body (Fig. 1b), enabling identification of transcript isoforms and not merely gene expression quantification.
Strikingly, there is a strong bias for methylated transcripts to be coupled with proximal APA sites, resulting in shortened 3′ untranslated regions, while nonmethylated transcript isoforms tend to use distal APA sites.
The RNA-seq methodology to characterize expression profiles permits assessment of the transcript isoforms yielding insight into functional roles of each transcript.
Tissues from pre- and post-pubertal heifers and mature mice were collected and the transcript isoforms characterized.
Each Ds1 insertion yielded 11 transcript isoforms.
This yielded 11 transcript isoforms for each Ds1 insertion.
Although 6 different transcript isoforms could be yielded, only a maximal 3 distinct protein isoforms would be translated.
Many animal genes encode multiple transcript isoforms, yet the effect of nutrient availability on transcript isoform expression has not been studied in genome-wide fashion.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com