RADAR: a rigorously annotated database of A-to-I RNA editing

被引：387

作者：

Ramaswami, Gokul ^{[1
]}

Li, Jin Billy ^{[1
]}

机构：

[1] Stanford Univ, Dept Genet, Stanford, CA 94305 USA

来源：

NUCLEIC ACIDS RESEARCH | 2014年 / 42卷 / D1期

基金：

美国国家卫生研究院;

关键词：

ACCURATE IDENTIFICATION; SITES; MOUSE;

D O I：

10.1093/nar/gkt996

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

We present RADAR-a rigorously annotated database of A-to-I RNA editing (available at http://RNAedit.com). The identification of A-to-I RNA editing sites has been dramatically accelerated in the past few years by high-throughput RNA sequencing studies. RADAR includes a comprehensive collection of A-to-I RNA editing sites identified in humans (Homo sapiens), mice (Mus musculus) and flies (Drosophila melanogaster), together with extensive manually curated annotations for each editing site. RADAR also includes an expandable listing of tissue-specific editing levels for each editing site, which will facilitate the assignment of biological functions to specific editing sites.

引用

页码：D109 / D113

页数：5

共 34 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] Genomic organization, proposed alternative splicing mechanisms, and RNA editing structure of GRIK1 [J].

Barbon, A ;

Barlati, S .

CYTOGENETICS AND CELL GENETICS, 2000, 88 (3-4) :236-239

[3] Control of human potassium channel inactivation by editing of a small mRNA hairpin [J].

Bhalla, T ;

Rosenthal, JJC ;

Holmgren, M ;

Reenan, R .

NATURE STRUCTURAL & MOLECULAR BIOLOGY, 2004, 11 (10) :950-956

[4] Regulation of serotonin-2C receptor G-protein coupling by RNA editing [J].

Burns, CM ;

Chu, H ;

Rueter, SM ;

Hutchinson, LK ;

Canton, H ;

SandersBush, E ;

Emeson, RB .

NATURE, 1997, 387 (6630) :303-308

[5] Identification of Widespread Ultra-Edited Human RNAs [J].

Carmi, Shai ;

Borukhov, Itamar ;

Levanon, Erez Y. .

PLOS GENETICS, 2011, 7 (10)

[6] Recoding RNA editing of AZIN1 predisposes to hepatocellular carcinoma [J].

Chen, Lei Lei ;

Li, Yan ;

Lin, Chi Ho ;

Chan, Tim Hon Man ;

Chow, Raymond Kwok Kei ;

Song, Yangyang ;

Liu, Ming ;

Yuan, Yun-Fei ;

Fu, Li ;

Kong, Kar Lok ;

Qi, Lihua ;

Li, Yan ;

Zhang, Na ;

Tong, Amy Hin Yan ;

Kwong, Dora Lai-Wan ;

Man, Kwan ;

Lo, Chung Mau ;

Lok, Si ;

Tenen, Daniel G. ;

Guan, Xin-Yuan .

NATURE MEDICINE, 2013, 19 (02) :209-216

[7] A bioinformatic screen for novel A-I RNA editing sites reveals recoding editing in BC10 [J].

Clutterbuck, DR ;

Leroy, A ;

O'Connell, MA ;

Semple, CAM .

BIOINFORMATICS, 2005, 21 (11) :2590-2595

[8] High levels of RNA-editing site conservation amongst 15 laboratory mouse strains [J].

Petr Danecek ;

Christoffer Nellåker ;

Rebecca E McIntyre ;

Jorge E Buendia-Buendia ;

Suzannah Bumpstead ;

Chris P Ponting ;

Jonathan Flint ;

Richard Durbin ;

Thomas M Keane ;

David J Adams .

Genome Biology, 13 (4)

[9] Screening of human SNP database identifies recoding sites of A-to-I RNA editing [J].

Gommans, Willemijn M. ;

Tatalias, Nicholas E. ;

Sie, Christina P. ;

Dupuis, Dylan ;

Vendetti, Nicholas ;

Smith, Lauren ;

Kaushal, Rikhi ;

Maas, Stefan .

RNA, 2008, 14 (10) :2074-2085

[10] The developmental transcriptome of Drosophila melanogaster [J].

Graveley, Brenton R. ;

Brooks, Angela N. ;

Carlson, JosephW. ;

Duff, Michael O. ;

Landolin, Jane M. ;

Yang, Li ;

Artieri, Carlo G. ;

van Baren, Marijke J. ;

Boley, Nathan ;

Booth, Benjamin W. ;

Brown, James B. ;

Cherbas, Lucy ;

Davis, Carrie A. ;

Dobin, Alex ;

Li, Renhua ;

Lin, Wei ;

Malone, John H. ;

Mattiuzzo, Nicolas R. ;

Miller, David ;

Sturgill, David ;

Tuch, Brian B. ;

Zaleski, Chris ;

Zhang, Dayu ;

Blanchette, Marco ;

Dudoit, Sandrine ;

Eads, Brian ;

Green, Richard E. ;

Hammonds, Ann ;

Jiang, Lichun ;

Kapranov, Phil ;

Langton, Laura ;

Perrimon, Norbert ;

Sandler, Jeremy E. ;

Wan, Kenneth H. ;

Willingham, Aarron ;

Zhang, Yu ;

Zou, Yi ;

Andrews, Justen ;

Bickel, Peter J. ;

Brenner, Steven E. ;

Brent, Michael R. ;

Cherbas, Peter ;

Gingeras, Thomas R. ;

Hoskins, Roger A. ;

Kaufman, Thomas C. ;

Oliver, Brian ;

Celniker, Susan E. .

NATURE, 2011, 471 (7339) :473-479

← 1 2 3 4 →