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Computational Analysis Tutorial for Chimeric Small Noncoding RNA: Target RNA Sequencing Libraries
Computational Analysis Tutorial for Chimeric Small Noncoding RNA: Target RNA Sequencing Libraries
JoVE Journal
Biology
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JoVE Journal Biology
Computational Analysis Tutorial for Chimeric Small Noncoding RNA: Target RNA Sequencing Libraries

Computational Analysis Tutorial for Chimeric Small Noncoding RNA: Target RNA Sequencing Libraries

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07:35 min

December 01, 2023

DOI:

07:35 min
December 01, 2023

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Transcript

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This protocol covers the installation and practical steps for the use of a computational pipeline designed to analyze high throughput sequencing data from chimeric noncoding RNA-target RNA-interactions. The molecular strategy to form chimeric RNAs is a relatively recent development that has advantages when compared to prior biochromatic prediction tools in unambiguously understanding the genome-wide noncoding RNA-target RNA-interaction landscape. Sequencing data generated from the high throughput sequencing of the chimeric RNAs can present an analysis challenge for new adopters of this strategy.

We have established an open source cross-platform computational pipeline that is highly annotated to allow entry-level users to analyze data from their chimeric noncoding RNA-target RNA sequencing experiments. In future experiments, the Mefford lab plans to use computational analysis by scrap on dataset generated from our ongoing investigations into post transcriptional regulation in the mammalian nervous system, as well as to maintain an update scrap on our GitHub.

Summary

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Here, we present a protocol demonstrating the installation and use of a bioinformatics pipeline to analyze chimeric RNA sequencing data used in the study of in vivo RNA:RNA interactions.

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