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A toolkit to handle T-less alignment for U insertion/deletion RNA editing

Zhang, F.; Aphasizhev, R.; Afasizheva, I.; Zhang, L.

2022-07-07 bioinformatics
10.1101/2022.07.06.498705 bioRxiv
Show abstract

SummaryIn the mitochondrial genome of kinetoplastids, the targeted insertion and deletion of uridine in cryptic mRNA is essential to generate functional protein-coding mRNAs, but such process leads to a highly hetergenous and complex RNA population. Few tools were developped to perform alignment based on a T depleted strategy for such mRNA population, however to our knowledge no downstream analysis tool is available so far to allow easy data processing and interpretation. Here, we fill this gap with the T-less-Alignment-Toolkit, which provides useful functions such as duplication removal with UMI, alignment strandness analysis, statistical summary and visualization. Availability and ImplementationScripts and toolkits can be downloaded at https://gitee.com/Zhanglab/tless-alignment-toolkit

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"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.