Genome-wide profiling of in vivo RNA structure at single-nucleotide resolution using structure-seq

被引:0
|
作者
Yiliang Ding
Chun Kit Kwok
Yin Tang
Philip C Bevilacqua
Sarah M Assmann
机构
[1] Pennsylvania State University,Department of Biology
[2] University Park,Department of Chemistry
[3] Pennsylvania State University,undefined
[4] University Park,undefined
[5] Center for RNA Molecular Biology,undefined
[6] Pennsylvania State University,undefined
[7] University Park,undefined
[8] Bioinformatics and Genomics Graduate Program,undefined
[9] Pennsylvania State University,undefined
[10] University Park,undefined
[11] Plant Biology Graduate Program,undefined
[12] Pennsylvania State University,undefined
[13] University Park,undefined
[14] Present address: Department of Cell and Developmental Biology,undefined
[15] John Innes Centre,undefined
[16] Norwich Research Park,undefined
[17] Norwich,undefined
[18] UK.,undefined
[19] Present address: Department of Chemistry,undefined
[20] University of Cambridge,undefined
[21] Lensfield Road,undefined
[22] Cambridge,undefined
[23] UK.,undefined
来源
Nature Protocols | 2015年 / 10卷
关键词
D O I
暂无
中图分类号
学科分类号
摘要
Structure-seq applies chemically based RNA structure probing on a genome-wide scale, allowing the in vivo structures of thousands of distinct transcripts to be discerned, and the meta-properties of RNA structure–function relationships to be unveiled.
引用
收藏
页码:1050 / 1066
页数:16
相关论文
共 50 条
  • [1] Genome-wide profiling of in vivo RNA structure at single-nucleotide resolution using structure-seq
    Ding, Yiliang
    Kwok, Chun Kit
    Tang, Yin
    Bevilacqua, Philip C.
    Assmann, Sarah M.
    NATURE PROTOCOLS, 2015, 10 (07) : 1050 - 1066
  • [2] Genome-wide dynamic transcriptional profiling in clostridium beijerinckii NCIMB 8052 using single-nucleotide resolution RNA-Seq
    Yi Wang
    Xiangzhen Li
    Yuejian Mao
    Hans P Blaschek
    BMC Genomics, 13
  • [3] Genome-wide dynamic transcriptional profiling in clostridium beijerinckii NCIMB 8052 using single-nucleotide resolution RNA-Seq
    Wang, Yi
    Li, Xiangzhen
    Mao, Yuejian
    Blaschek, Hans P.
    BMC GENOMICS, 2012, 13
  • [4] Structure-seq2: sensitive and accurate genome-wide profiling of RNA structure in vivo
    Ritchey, Laura E.
    Su, Zhao
    Tang, Yin
    Tack, David C.
    Assmann, Sarah M.
    Bevilacqua, Philip C.
    NUCLEIC ACIDS RESEARCH, 2017, 45 (14) : E135
  • [5] Genome-Wide Distribution of DNA Methylation at Single-Nucleotide Resolution
    Wong, Eleanor
    Wei, Chia-Lin
    MODIFICATIONS OF NUCLEAR DNA AND ITS REGULATORY PROTEINS, 2011, 101 : 459 - 477
  • [6] Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling
    Ingolia, Nicholas T.
    Ghaemmaghami, Sina
    Newman, John R. S.
    Weissman, Jonathan S.
    SCIENCE, 2009, 324 (5924) : 218 - 223
  • [7] CNCC: an analysis tool to determine genome-wide DNA break end structure at single-nucleotide resolution
    Szlachta, Karol
    Raimer, Heather M.
    Comeau, Laurey D.
    Wang, Yuh-Hwa
    BMC GENOMICS, 2020, 21 (01)
  • [8] CNCC: an analysis tool to determine genome-wide DNA break end structure at single-nucleotide resolution
    Karol Szlachta
    Heather M. Raimer
    Laurey D. Comeau
    Yuh-Hwa Wang
    BMC Genomics, 21
  • [9] How RNA folds in vivo: Structure of low abundance transcripts and genome-wide profiling of RNA structure
    Bevilacqua, Philip C.
    Kwok, Chun Kit
    Ding, Yiliang
    Tang, Yin
    Assmann, Sarah M.
    ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 2013, 246
  • [10] Single-nucleotide resolution analysis of the transcriptome structure of Clostridium beijerinckii NCIMB 8052 using RNA-Seq
    Wang, Yi
    Li, Xiangzhen
    Mao, Yuejian
    Blaschek, Hans P.
    BMC GENOMICS, 2011, 12