Dataset Information

TReasure: R-based GUI package analyzing tRNA expression profiles from small RNA sequencing data.

ABSTRACT:

Background

Recent deep sequencing technologies have proven to be valuable resources to gain insights into the expression profiles of diverse tRNAs. However, despite these technologies, the association of tRNAs with diverse diseases has not been explored in depth because analytical tools are lacking.

Results

We developed a user-friendly tool, tRNA Expression Analysis Software Utilizing R for Easy use (tReasure), to analyze differentially expressed tRNAs (DEtRNAs) from deep sequencing data of small RNAs using R packages. tReasure can quantify individual mature tRNAs, isodecoders, and isoacceptors. By adopting stringent mapping strategies, tReasure supports the precise measurement of mature tRNA read counts. The whole analysis workflow for determining DEtRNAs (uploading FASTQ files, removing adapter sequences and poor-quality reads, mapping and quantifying tRNAs, filtering out low count tRNAs, determining DEtRNAs, and visualizing statistical analysis) can be performed with the tReasure package.

Conclusions

tReasure is an open-source software available for download at https://treasure.pmrc.re.kr and will be indispensable for users who have little experience with command-line software to explore the biological implication of tRNA expression.

SUBMITTER: Lee JO

PROVIDER: S-EPMC9063265 | biostudies-literature | 2022 May

REPOSITORIES: biostudies-literature

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Publications

tReasure: R-based GUI package analyzing tRNA expression profiles from small RNA sequencing data.

Lee Jin-Ok JO Chu Jiyon J Jang Gyuyeon G Lee Minho M Chung Yeun-Jun YJ

BMC bioinformatics 20220502 1

<h4>Background</h4>Recent deep sequencing technologies have proven to be valuable resources to gain insights into the expression profiles of diverse tRNAs. However, despite these technologies, the association of tRNAs with diverse diseases has not been explored in depth because analytical tools are lacking.<h4>Results</h4>We developed a user-friendly tool, tRNA Expression Analysis Software Utilizing R for Easy use (tReasure), to analyze differentially expressed tRNAs (DEtRNAs) from deep sequenci ...[more]

PMID: 35501677

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