期刊
GENOME BIOLOGY
卷 22, 期 1, 页码 -出版社
BMC
DOI: 10.1186/s13059-020-02241-7
关键词
N-6-Methyladenosine; Nanopore direct RNA sequencing; Alternative polyadenylation; Stem-differentiating xylem; Populus trichocarpa
资金
- National Key Research and Development Program of China [2016YFD0600106]
The study introduces a new pipeline, Nanom6A, for the identification and quantification of m(6)A modification at single-base resolution, providing transcriptome-wide quantification of m(6)A modification in stem-differentiating xylem.
There are no comprehensive methods to identify N-6-methyladenosine (m(6)A) at single-base resolution for every single transcript, which is necessary for the estimation of m(6)A abundance. We develop a new pipeline called Nanom6A for the identification and quantification of m(6)A modification at single-base resolution using Nanopore direct RNA sequencing based on an XGBoost model. We validate our method using methylated RNA immunoprecipitation sequencing (MeRIP-Seq) and m(6)A-sensitive RNA-endoribonuclease-facilitated sequencing (m6A-REF-seq), confirming high accuracy. Using this method, we provide a transcriptome-wide quantification of m(6)A modification in stem-differentiating xylem and reveal that different alternative polyadenylation (APA) usage shows a different ratio of m(6)A.
作者
我是这篇论文的作者
点击您的名字以认领此论文并将其添加到您的个人资料中。
推荐
暂无数据