Paper Info
Title
Webpord: A Web-Based Pipeline Of Rna Degradome
Abstract
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.
Year
DOI
Venue
2019
10.1504/IJDMB.2019.100623
INTERNATIONAL JOURNAL OF DATA MINING AND BIOINFORMATICS
Keywords
DocType
Volume
web-based pipeline, next-generation sequencing, RNA degradome, parallel analysis of RNA ends
Journal
22
Issue
ISSN
Citations 
3
1748-5673
0
PageRank 
References 
Authors
0.34
0
6
Name
Order
Citations
PageRank
Jung-Im Won18610.56
Jun-Beom Lee200.34
HeonWoo Lee300.34
Jaemoon Shin400.34
Jee-Hee Yoon5498.70
Dong-Hoon Jeong600.34