The difficult calls in RNA editing

被引:27
作者
Bass, Brenda [1 ]
Hundley, Heather [2 ]
Li, Jin Billy [3 ]
Peng, Zhiyu
Pickrell, Joe [4 ]
Xiao, Xinshu Grace [5 ]
Yang, Li [6 ]
机构
[1] Univ Utah, Dept Biochem, Salt Lake City, UT 84112 USA
[2] Indiana Univ, Bloomington, IN 47405 USA
[3] Stanford Univ, Stanford, CA 94305 USA
[4] Harvard Univ, Sch Med, Dept Genet, Cambridge, MA 02138 USA
[5] Univ Calif Los Angeles, Los Angeles, CA USA
[6] CAS MPG Partner Inst Computat Biol, Shanghai, Peoples R China
关键词
DNA-SEQUENCE DIFFERENCES; HUMAN TRANSCRIPTOME; WIDESPREAD RNA; ACCURATE IDENTIFICATION; SEQ DATA; HAIRPINS;
D O I
10.1038/nbt.2452
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
Accounting for errors arising from different high-throughput sequencing platforms and those arising from the approaches used to call variants are at the center of a controversy in RNA editing.
引用
收藏
页码:1207 / 1209
页数:3
相关论文
共 12 条
[1]   Accurate identification of A-to-I RNA editing in human by transcriptome sequencing [J].
Bahn, Jae Hoon ;
Lee, Jae-Hyung ;
Li, Gang ;
Greer, Christopher ;
Peng, Guangdun ;
Xiao, Xinshu .
GENOME RESEARCH, 2012, 22 (01) :142-150
[2]  
Kleinman CL, 2012, SCIENCE, V335, DOI [10.1126/science.1209658, 10.1126/science.1210624]
[3]   RNA editing of protein sequences: A rare event in human transcriptomes [J].
Kleinman, Claudia L. ;
Adoue, Veronique ;
Majewski, Jacek .
RNA, 2012, 18 (09) :1586-1596
[4]   Widespread RNA and DNA Sequence Differences in the Human Transcriptome [J].
Li, Mingyao ;
Wang, Isabel X. ;
Li, Yun ;
Bruzel, Alan ;
Richards, Allison L. ;
Toung, Jonathan M. ;
Cheung, Vivian G. .
SCIENCE, 2011, 333 (6038) :53-58
[5]  
Lin W, 2012, SCIENCE, V335, DOI 10.1126/science.1210624
[6]   Long RNA hairpins that contain inosine are present in Caenorhabditis elegans poly(A)+ RNA [J].
Morse, DP ;
Bass, BL .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1999, 96 (11) :6048-6053
[7]   RNA hairpins in noncoding regions of human brain and Caenorhabditis elegans mRNA are edited by adenosine deaminases that act on RNA [J].
Morse, DP ;
Aruscavage, PJ ;
Bass, BL .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2002, 99 (12) :7906-7911
[8]   RNA editing in the human ENCODE RNA-seq data [J].
Park, Eddie ;
Williams, Brian ;
Wold, Barbara J. ;
Mortazavi, Ali .
GENOME RESEARCH, 2012, 22 (09) :1626-1633
[9]   Comprehensive analysis of RNA-Seq data reveals extensive RNA editing in a human transcriptome [J].
Peng, Zhiyu ;
Cheng, Yanbing ;
Tan, Bertrand Chin-Ming ;
Kang, Lin ;
Tian, Zhijian ;
Zhu, Yuankun ;
Zhang, Wenwei ;
Liang, Yu ;
Hu, Xueda ;
Tan, Xuemei ;
Guo, Jing ;
Dong, Zirui ;
Liang, Yan ;
Bao, Li ;
Wang, Jun .
NATURE BIOTECHNOLOGY, 2012, 30 (03) :253-+
[10]   Comment on "Widespread RNA and DNA Sequence Differences in the Human Transcriptome" [J].
Pickrell, Joseph K. ;
Gilad, Yoav ;
Pritchard, Jonathan K. .
SCIENCE, 2012, 335 (6074)