메뉴 건너뛰기




Volumn 22, Issue 9, 2012, Pages 1626-1633

RNA editing in the human ENCODE RNA-seq data

Author keywords

[No Author keywords available]

Indexed keywords

3' UNTRANSLATED REGION; ARTICLE; CELL DIVISION; CHROMATIN IMMUNOPRECIPITATION; EXON; GENE MAPPING; GENETIC VARIABILITY; HAPLOTYPE MAP; HUMAN; HUMAN CELL; INTRON; LYMPHOBLASTOID CELL LINE; PRIORITY JOURNAL; RNA EDITING; RNA SEQUENCE; RNA SPLICING; RNA TRANSLATION; SINGLE NUCLEOTIDE POLYMORPHISM;

EID: 84865858631     PISSN: 10889051     EISSN: 15495469     Source Type: Journal    
DOI: 10.1101/gr.134957.111     Document Type: Article
Times cited : (125)

References (42)
  • 1
    • 84975742565 scopus 로고    scopus 로고
    • A map of human genome variation from population-scale sequencing
    • The 1000 Genomes Project Consortium
    • The 1000 Genomes Project Consortium. 2010. A map of human genome variation from population-scale sequencing. Nature 467: 1061-1073.
    • (2010) Nature , vol.467 , pp. 1061-1073
  • 3
    • 12344300804 scopus 로고    scopus 로고
    • Widespread A-to-I RNA editing of Alu-containing mRNAs in the human transcriptome
    • doi: 10.1371/journal.pbio.0020391
    • Athanasiadis A, Rich A, Maas S. 2004.Widespread A-to-I RNA editing of Alu-containing mRNAs in the human transcriptome. PLoS Biol 2: e391. doi: 10.1371/journal.pbio.0020391.
    • (2004) PLoS Biol , vol.2
    • Athanasiadis, A.1    Rich, A.2    Maas, S.3
  • 4
    • 84855320189 scopus 로고    scopus 로고
    • Accurate identification of A-to-I RNA editing in human by transcriptome sequencing
    • Bahn JH, Lee JH, Li G, Greer C, Peng G, Xiao X. 2012. Accurate identification of A-to-I RNA editing in human by transcriptome sequencing. Genome Res 22: 142-150.
    • (2012) Genome Res , vol.22 , pp. 142-150
    • Bahn, J.H.1    Lee, J.H.2    Li, G.3    Greer, C.4    Peng, G.5    Xiao, X.6
  • 7
    • 3142756502 scopus 로고    scopus 로고
    • Open source clustering software
    • DOI 10.1093/bioinformatics/bth078
    • de Hoon MJL, Imoto S, Nolan J, Miyano S. 2004. Open Source Clustering Software. Bioinformatics 20: 1453-1454. (Pubitemid 38931415)
    • (2004) Bioinformatics , vol.20 , Issue.9 , pp. 1453-1454
    • De Hoon, M.J.L.1    Imoto, S.2    Nolan, J.3    Miyano, S.4
  • 8
    • 70749142026 scopus 로고    scopus 로고
    • Editing of HIV-1 RNA by the double-stranded RNA deaminase ADAR stimulates viral infection
    • Doria M, Neri F, Gallo A, Farace MG, Michienzi A. 2009. Editing of HIV-1 RNA by the double-stranded RNA deaminase ADAR stimulates viral infection. Nucleic Acids Res 37: 5848-5858.
    • (2009) Nucleic Acids Res , vol.37 , pp. 5848-5858
    • Doria, M.1    Neri, F.2    Gallo, A.3    Farace, M.G.4    Michienzi, A.5
  • 9
    • 0035369742 scopus 로고    scopus 로고
    • RNA editing by base deamination: More enzymes, more targets, new mysteries
    • DOI 10.1016/S0968-0004(01)01827-8, PII S0968000401018278
    • Gerber AP, Keller W. 2001. RNA editing by base deamination: more enzymes, more targets, new mysteries. Trends Biochem Sci 26: 376-384. (Pubitemid 32530656)
    • (2001) Trends in Biochemical Sciences , vol.26 , Issue.6 , pp. 376-384
    • Gerber, A.P.1    Keller, W.2
  • 10
    • 57849167057 scopus 로고    scopus 로고
    • A new function for the RNA-editing enzyme ADAR
    • Iizasa H, Nishikura K. 2009. A new function for the RNA-editing enzyme ADAR. Nat Immunol 10: 16-18.
    • (2009) Nat Immunol , vol.10 , pp. 16-18
    • Iizasa, H.1    Nishikura, K.2
  • 13
    • 77954505224 scopus 로고    scopus 로고
    • DARNED: A DAtabase of RNa EDiting in humans
    • Kiran A, Baranov PV. 2010. DARNED: A DAtabase of RNa EDiting in humans. Bioinformatics 26: 772-776.
    • (2010) Bioinformatics , vol.26 , pp. 772-776
    • Kiran, A.1    Baranov, P.V.2
  • 14
    • 84858328300 scopus 로고    scopus 로고
    • Comment on "Widespread RNA and DNA sequence differences in the human transcriptome."
    • doi: 10.1126/science.1209658
    • Kleinman CL, Majewski J. 2012. Comment on "Widespread RNA and DNA sequence differences in the human transcriptome." Science 335: 1302. doi: 10.1126/science.1209658.
    • (2012) Science , vol.335 , pp. 1302
    • Kleinman, C.L.1    Majewski, J.2
  • 16
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • doi: 10.1186/gb-2009-10-3-r25.
    • Langmead B, Trapnell C, Pop M, Salzberg SL. 2009. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10: R25. doi: 10.1186/gb-2009-10-3-r25.
    • (2009) Genome Biol , vol.10
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 18
    • 84858328300 scopus 로고    scopus 로고
    • Comment on "Widespread RNA and DNA sequence differences in the human transcriptome."
    • doi: 10.1126/science.1210624
    • Lin W, Piskol R, Tan MH, Li JB. 2012. Comment on "Widespread RNA and DNA sequence differences in the human transcriptome." Science 335: 1302. doi: 10.1126/science.1210624.
    • (2012) Science , vol.335 , pp. 1302
    • Lin, W.1    Piskol, R.2    Tan, M.H.3    Li, J.B.4
  • 19
    • 3342969381 scopus 로고    scopus 로고
    • RNA editing of a miRNA precursor
    • DOI 10.1261/rna.7350304
    • Luciano DJ, Mirsky H, Vendetti NJ, Maas S. 2004. RNA editing of a miRNA precursor. RNA 10: 1174-1177. (Pubitemid 38989003)
    • (2004) RNA , vol.10 , Issue.8 , pp. 1174-1177
    • Luciano, D.J.1    Mirsky, H.2    Vendetti, N.J.3    Maas, S.4
  • 23
    • 46249106990 scopus 로고    scopus 로고
    • Mapping and quantifying mammalian transcriptomes by RNA-Seq
    • DOI 10.1038/nmeth.1226, PII NMETH.1226
    • Mortazavi A, Williams BA, McCue K, Schaeffer L, Wold B. 2008. Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat Methods 5: 621-628. (Pubitemid 351911867)
    • (2008) Nature Methods , vol.5 , Issue.7 , pp. 621-628
    • Mortazavi, A.1    Williams, B.A.2    McCue, K.3    Schaeffer, L.4    Wold, B.5
  • 24
    • 33845315229 scopus 로고    scopus 로고
    • Editor meets silencer: Crosstalk between RNA editing and RNA interference
    • DOI 10.1038/nrm2061, PII NRM2061
    • Nishikura K. 2006. Editor meets silencer: Crosstalk between RNA editing and RNA interference. Nat Rev Mol Cell Biol 7: 919-931. (Pubitemid 44871418)
    • (2006) Nature Reviews Molecular Cell Biology , vol.7 , Issue.12 , pp. 919-931
    • Nishikura, K.1
  • 25
    • 77952293063 scopus 로고    scopus 로고
    • Functions and regulation of RNA editing by ADAR deaminases
    • Nishikura K. 2010. Functions and regulation of RNA editing by ADAR deaminases. Annu Rev Biochem 79: 321-349.
    • (2010) Annu Rev Biochem , vol.79 , pp. 321-349
    • Nishikura, K.1
  • 27
    • 54049083387 scopus 로고    scopus 로고
    • Visualizing phylogenetic trees using TreeView
    • Page RD. 2002. Visualizing phylogenetic trees using TreeView. Curr Protoc Bioinformatics 6.2.1-6.2.15.
    • (2002) Curr Protoc Bioinformatics
    • Page, R.D.1
  • 29
    • 33344477023 scopus 로고    scopus 로고
    • ADAR2-dependent RNA editing of AMPA receptor subunit GluR2 determines vulnerability of neurons in forebrain ischemia
    • DOI 10.1016/j.neuron.2006.01.025, PII S0896627306000791
    • Peng PL, Zhong X, Tu W, Soundarapandian MM, Molner P, Zhu D, Lau L, Liu S, Liu F, Lu Y. 2006. ADARB1-dependent RNA editing of AMPA receptor subunit GluR2 determines vulnerability of neurons in forebrain ischemia. Neuron 49: 719-733. (Pubitemid 43290131)
    • (2006) Neuron , vol.49 , Issue.5 , pp. 719-733
    • Peng, P.L.1    Zhong, X.2    Tu, W.3    Soundarapandian, M.M.4    Molner, P.5    Zhu, D.6    Lau, L.7    Liu, S.8    Liu, F.9    Lu, Y.10
  • 31
    • 84863385039 scopus 로고    scopus 로고
    • Comment on "Widespread RNA and DNA sequence differences in the human transcriptome."
    • doi: 10.1126/science.1210484
    • Pickrell JK, Gilad Y, Pritchard JK. 2012. Comment on "Widespread RNA and DNA sequence differences in the human transcriptome." Science 335: 1302. doi: 10.1126/science.1210484.
    • (2012) Science , vol.335 , pp. 1302
    • Pickrell, J.K.1    Gilad, Y.2    Pritchard, J.K.3
  • 32
    • 0027967784 scopus 로고
    • Preferential selection of adenosines for modification by double-stranded RNA adenosine deaminase
    • Polson AG, Bass BL. 1994. Preferential selection of adenosines for modification by double-stranded RNA adenosine deaminase. EMBO J 13: 5701-5711. (Pubitemid 24363038)
    • (1994) EMBO Journal , vol.13 , Issue.23 , pp. 5701-5711
    • Polson, A.G.1    Bass, B.L.2
  • 34
    • 80053980948 scopus 로고    scopus 로고
    • Very few RNA and DNA sequence differences in the human transcriptome
    • doi: 10.1371/journal.pone.0025842
    • Schrider DR, Gout JF, Hahn MW. 2011. Very few RNA and DNA sequence differences in the human transcriptome. PLoS ONE 6: e25842. doi: 10.1371/journal.pone.0025842.
    • (2011) PLoS ONE , vol.6
    • Schrider, D.R.1    Gout, J.F.2    Hahn, M.W.3
  • 35
    • 0032077722 scopus 로고    scopus 로고
    • RNA editing of brain glutamate receptor channels: Mechanism and physiology
    • DOI 10.1016/S0165-0173(97)00062-3, PII S0165017397000623
    • Seeburg PH, Higuchi M, Sprengel R. 1998. RNA editing of brain glutamate receptor channels: Mechanism and physiology. Brain Res Brain Res Rev 26: 217-229. (Pubitemid 28318077)
    • (1998) Brain Research Reviews , vol.26 , Issue.2-3 , pp. 217-229
    • Seeburg, P.H.1    Higuchi, M.2    Sprengel, R.3
  • 37
    • 18144401994 scopus 로고    scopus 로고
    • New antiviral pathway that mediates hepatitis C virus replicon interferon sensitivity through ADAR1
    • DOI 10.1128/JVI.79.10.6291-6298.2005
    • Taylor DR, Puig M, Darnell ME, Mihalik K, Feinstone SM. 2005. New antiviral pathway that mediates hepatitis C virus replicon interferon sensitivity through ADAR. J Virol 79: 6291-6298. (Pubitemid 40617233)
    • (2005) Journal of Virology , vol.79 , Issue.10 , pp. 6291-6298
    • Taylor, D.R.1    Puig, M.2    Darnell, M.E.R.3    Mihalik, K.4    Feinstone, S.M.5
  • 40
    • 13944265983 scopus 로고    scopus 로고
    • Vigilins bind to promiscuously A-to-I-edited RNAs and are involved in the formation of heterochromatin
    • DOI 10.1016/j.cub.2005.01.046
    • Wang Q, Zhang Z, Blackwell K, Carmichael GG. 2005. Vigilins bind to promiscuously A-to-I-edited RNAs and are involved in the formation of heterochromatin. Curr Biol 15: 384-391. (Pubitemid 40263374)
    • (2005) Current Biology , vol.15 , Issue.4 , pp. 384-391
    • Wang, Q.1    Zhang, Z.2    Blackwell, K.3    Carmichael, G.G.4
  • 41
    • 77956534324 scopus 로고    scopus 로고
    • ANNOVAR: Functional annotation of genetic variants from high-throughput sequencing data
    • doi: 10.1093/nar/gkq603
    • Wang K, Li M, Hakonarson H. 2010. ANNOVAR: Functional annotation of genetic variants from high-throughput sequencing data. Nucleic Acids Res 38: e164. doi: 10.1093/nar/gkq603.
    • (2010) Nucleic Acids Res , vol.38
    • Wang, K.1    Li, M.2    Hakonarson, H.3
  • 42
    • 0026632417 scopus 로고
    • Editing on the genomic RNA of human hepatitis delta virus
    • Zheng H, Fu TB, Lazinski D, Taylor J. 1992. Editing on the genomic RNA of human hepatitis delta virus. J Virol 66: 4693-4697.
    • (1992) J Virol , vol.66 , pp. 4693-4697
    • Zheng, H.1    Fu, T.B.2    Lazinski, D.3    Taylor, J.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.