WebPORD: a web-based pipeline of RNA degradome
| العنوان: | WebPORD: a web-based pipeline of RNA degradome |
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| المؤلفون: | Jeehee Yoon, Jung-Im Won, Dong Hoon Jeong, HeonWoo Lee, JunBeom Lee, JaeMoon Shin |
| المصدر: | International Journal of Data Mining and Bioinformatics. 22:216 |
| بيانات النشر: | Inderscience Publishers, 2019. |
| سنة النشر: | 2019 |
| مصطلحات موضوعية: | Regulation of gene expression, business.industry, 0206 medical engineering, RNA, Genomics, 02 engineering and technology, Computational biology, Biology, Library and Information Sciences, Pipeline (software), DNA sequencing, General Biochemistry, Genetics and Molecular Biology, Transcriptome, microRNA, Web application, business, 020602 bioinformatics, Information Systems |
| الوصف: | The advent of high-throughput Next-Generation Sequencing (NGS) technology has brought in a new genomics era. It is widely utilised not only for genomic but also for transcriptome sequencing. NGS-based transcriptomic methods, including RNA-seq, are widely used to study gene expression regulation. Recently, post-transcriptional gene regulation has been studied by several RNA degradome sequencing methods that differ from RNA-seq and directly profile degraded RNAs. Parallel Analysis of RNA Ends (PARE) sequencing is one of these methods. It is widely used for identifying microRNA targets and nonsense-mediated mRNA decay events as well as for global analysis of RNA degradation. We have developed WebPORD, a user-friendly web-based pipeline for analysing the PARE sequencing data. This pipeline trims and applies several filters to PARE sequencing. In addition, this pipeline provides a degradome table and degradome-plots for users to further analyse RNA degradation at a genomic scale. This is the first web-based pipeline for global analysis of RNA degradation using PARE data from animals and plants, which provides mechanistic insights into post-transcriptional gene regulation. |
| تدمد: | 1748-5681 1748-5673 |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::3d53cdbb5b2ab6a8be0f400bfec589d5 https://doi.org/10.1504/ijdmb.2019.100623 |
| رقم الأكسشن: | edsair.doi.dedup.....3d53cdbb5b2ab6a8be0f400bfec589d5 |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 17485681 17485673 |
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