Literature DB >> 23222792

The difficult calls in RNA editing. Interviewed by H Craig Mak.

Brenda Bass, Heather Hundley, Jin Billy Li, Zhiyu Peng, Joe Pickrell, Xinshu Grace Xiao, Li Yang.   

Abstract

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Year:  2012        PMID： 23222792     DOI： 10.1038/nbt.2452

Source DB:  PubMed          Journal:  Nat Biotechnol        ISSN： 1087-0156            Impact factor:   54.908


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  12 in total

1.  Comment on "Widespread RNA and DNA sequence differences in the human transcriptome".

Authors:  Wei Lin; Robert Piskol; Meng How Tan; Jin Billy Li
Journal:  Science       Date:  2012-03-16       Impact factor: 47.728

2.  Accurate identification of A-to-I RNA editing in human by transcriptome sequencing.

Authors:  Jae Hoon Bahn; Jae-Hyung Lee; Gang Li; Christopher Greer; Guangdun Peng; Xinshu Xiao
Journal:  Genome Res       Date:  2011-09-29       Impact factor: 9.043

3.  Long RNA hairpins that contain inosine are present in Caenorhabditis elegans poly(A)+ RNA.

Authors:  D P Morse; B L Bass
Journal:  Proc Natl Acad Sci U S A       Date:  1999-05-25       Impact factor: 11.205

4.  RNA hairpins in noncoding regions of human brain and Caenorhabditis elegans mRNA are edited by adenosine deaminases that act on RNA.

Authors:  Daniel P Morse; P Joseph Aruscavage; Brenda L Bass
Journal:  Proc Natl Acad Sci U S A       Date:  2002-06-04       Impact factor: 11.205

5.  Accurate identification of human Alu and non-Alu RNA editing sites.

Authors:  Gokul Ramaswami; Wei Lin; Robert Piskol; Meng How Tan; Carrie Davis; Jin Billy Li
Journal:  Nat Methods       Date:  2012-04-04       Impact factor: 28.547

6.  Widespread RNA and DNA sequence differences in the human transcriptome.

Authors:  Mingyao Li; Isabel X Wang; Yun Li; Alan Bruzel; Allison L Richards; Jonathan M Toung; Vivian G Cheung
Journal:  Science       Date:  2011-05-19       Impact factor: 47.728

7.  Comprehensive analysis of RNA-Seq data reveals extensive RNA editing in a human transcriptome.

Authors:  Zhiyu Peng; Yanbing Cheng; Bertrand Chin-Ming Tan; Lin Kang; Zhijian Tian; Yuankun Zhu; Wenwei Zhang; Yu Liang; Xueda Hu; Xuemei Tan; Jing Guo; Zirui Dong; Yan Liang; Li Bao; Jun Wang
Journal:  Nat Biotechnol       Date:  2012-02-12       Impact factor: 54.908

8.  RNA editing of protein sequences: a rare event in human transcriptomes.

Authors:  Claudia L Kleinman; Véronique Adoue; Jacek Majewski
Journal:  RNA       Date:  2012-07-25       Impact factor: 4.942

9.  Mutational evolution in a lobular breast tumour profiled at single nucleotide resolution.

Authors:  Sohrab P Shah; Ryan D Morin; Jaswinder Khattra; Leah Prentice; Trevor Pugh; Angela Burleigh; Allen Delaney; Karen Gelmon; Ryan Guliany; Janine Senz; Christian Steidl; Robert A Holt; Steven Jones; Mark Sun; Gillian Leung; Richard Moore; Tesa Severson; Greg A Taylor; Andrew E Teschendorff; Kane Tse; Gulisa Turashvili; Richard Varhol; René L Warren; Peter Watson; Yongjun Zhao; Carlos Caldas; David Huntsman; Martin Hirst; Marco A Marra; Samuel Aparicio
Journal:  Nature       Date:  2009-10-08       Impact factor: 49.962

10.  RNA editing in the human ENCODE RNA-seq data.

Authors:  Eddie Park; Brian Williams; Barbara J Wold; Ali Mortazavi
Journal:  Genome Res       Date:  2012-09       Impact factor: 9.043
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  18 in total

1.  Genetic Architectures of Quantitative Variation in RNA Editing Pathways.

Authors:  Tongjun Gu; Daniel M Gatti; Anuj Srivastava; Elizabeth M Snyder; Narayanan Raghupathy; Petr Simecek; Karen L Svenson; Ivan Dotu; Jeffrey H Chuang; Mark P Keller; Alan D Attie; Robert E Braun; Gary A Churchill
Journal:  Genetics       Date:  2015-11-27       Impact factor: 4.562

Review 2.  mRNA Editing, Processing and Quality Control in Caenorhabditis elegans.

Authors:  Joshua A Arribere; Hidehito Kuroyanagi; Heather A Hundley
Journal:  Genetics       Date:  2020-07       Impact factor: 4.562

3.  Alternative applications for distinct RNA sequencing strategies.

Authors:  Leng Han; Kasey C Vickers; David C Samuels; Yan Guo
Journal:  Brief Bioinform       Date:  2014-09-22       Impact factor: 11.622

4.  RED-ML: a novel, effective RNA editing detection method based on machine learning.

Authors:  Heng Xiong; Dongbing Liu; Qiye Li; Mengyue Lei; Liqin Xu; Liang Wu; Zongji Wang; Shancheng Ren; Wangsheng Li; Min Xia; Lihua Lu; Haorong Lu; Yong Hou; Shida Zhu; Xin Liu; Yinghao Sun; Jian Wang; Huanming Yang; Kui Wu; Xun Xu; Leo J Lee
Journal:  Gigascience       Date:  2017-05-01       Impact factor: 6.524

5.  Profiling the RNA editomes of wild-type C. elegans and ADAR mutants.

Authors:  Han-Qing Zhao; Pan Zhang; Hua Gao; Xiandong He; Yanmei Dou; August Y Huang; Xi-Ming Liu; Adam Y Ye; Meng-Qiu Dong; Liping Wei
Journal:  Genome Res       Date:  2014-11-04       Impact factor: 9.043

6.  RNA editome in rhesus macaque shaped by purifying selection.

Authors:  Jia-Yu Chen; Zhiyu Peng; Rongli Zhang; Xin-Zhuang Yang; Bertrand Chin-Ming Tan; Huaying Fang; Chu-Jun Liu; Mingming Shi; Zhi-Qiang Ye; Yong E Zhang; Minghua Deng; Xiuqin Zhang; Chuan-Yun Li
Journal:  PLoS Genet       Date:  2014-04-10       Impact factor: 5.917

7.  Comparative validation of the D. melanogaster modENCODE transcriptome annotation.

Authors:  Zhen-Xia Chen; David Sturgill; Jiaxin Qu; Huaiyang Jiang; Soo Park; Nathan Boley; Ana Maria Suzuki; Anthony R Fletcher; David C Plachetzki; Peter C FitzGerald; Carlo G Artieri; Joel Atallah; Olga Barmina; James B Brown; Kerstin P Blankenburg; Emily Clough; Abhijit Dasgupta; Sai Gubbala; Yi Han; Joy C Jayaseelan; Divya Kalra; Yoo-Ah Kim; Christie L Kovar; Sandra L Lee; Mingmei Li; James D Malley; John H Malone; Tittu Mathew; Nicolas R Mattiuzzo; Mala Munidasa; Donna M Muzny; Fiona Ongeri; Lora Perales; Teresa M Przytycka; Ling-Ling Pu; Garrett Robinson; Rebecca L Thornton; Nehad Saada; Steven E Scherer; Harold E Smith; Charles Vinson; Crystal B Warner; Kim C Worley; Yuan-Qing Wu; Xiaoyan Zou; Peter Cherbas; Manolis Kellis; Michael B Eisen; Fabio Piano; Karin Kionte; David H Fitch; Paul W Sternberg; Asher D Cutter; Michael O Duff; Roger A Hoskins; Brenton R Graveley; Richard A Gibbs; Peter J Bickel; Artyom Kopp; Piero Carninci; Susan E Celniker; Brian Oliver; Stephen Richards
Journal:  Genome Res       Date:  2014-07       Impact factor: 9.043

8.  RDDpred: a condition-specific RNA-editing prediction model from RNA-seq data.

Authors:  Min-su Kim; Benjamin Hur; Sun Kim
Journal:  BMC Genomics       Date:  2016-01-11       Impact factor: 3.969

9.  Profiling RNA editing in human tissues: towards the inosinome Atlas.

Authors:  Ernesto Picardi; Caterina Manzari; Francesca Mastropasqua; Italia Aiello; Anna Maria D'Erchia; Graziano Pesole
Journal:  Sci Rep       Date:  2015-10-09       Impact factor: 4.379

10.  Comprehensive analysis of transcriptome variation uncovers known and novel driver events in T-cell acute lymphoblastic leukemia.

Authors:  Zeynep Kalender Atak; Valentina Gianfelici; Gert Hulselmans; Kim De Keersmaecker; Arun George Devasia; Ellen Geerdens; Nicole Mentens; Sabina Chiaretti; Kaat Durinck; Anne Uyttebroeck; Peter Vandenberghe; Iwona Wlodarska; Jacqueline Cloos; Robin Foà; Frank Speleman; Jan Cools; Stein Aerts
Journal:  PLoS Genet       Date:  2013-12-19       Impact factor: 5.917
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