메뉴 건너뛰기




Volumn 11, Issue , 2010, Pages

A computational screen for site selective A-to-I editing detects novel sites in neuron specific Hu proteins

Author keywords

[No Author keywords available]

Indexed keywords

BRAIN DEVELOPMENT; CANDIDATE GENES; CODING SEQUENCES; EXPERIMENTAL VERIFICATION; EXPRESSED SEQUENCES; GENOMIC SEQUENCE; RNA-BINDING PROTEIN; SCORING SCHEMES;

EID: 77649109065     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-11-6     Document Type: Article
Times cited : (27)

References (49)
  • 1
    • 35548940665 scopus 로고    scopus 로고
    • Neuronal regulation of alternative pre-mRNA splicing
    • Li Q, Lee JA, Black DL. Neuronal regulation of alternative pre-mRNA splicing. Nat Rev Neurosci 2007, 8(11):819-831.
    • (2007) Nat Rev Neurosci , vol.8 , Issue.11 , pp. 819-831
    • Li, Q.1    Lee, J.A.2    Black, D.L.3
  • 2
    • 33748607688 scopus 로고    scopus 로고
    • Breaking the central dogma by RNA editing
    • Maydanovych O, Beal PA. Breaking the central dogma by RNA editing. Chem Rev 2006, 106(8):3397-3411.
    • (2006) Chem Rev , vol.106 , Issue.8 , pp. 3397-3411
    • Maydanovych, O.1    Beal, P.A.2
  • 4
    • 0033022121 scopus 로고    scopus 로고
    • Long RNA hairpins that contain inosine are present in Caenorhabditis elegans poly(A)+ RNA
    • 26833, 10339539
    • Morse DP, Bass BL. Long RNA hairpins that contain inosine are present in Caenorhabditis elegans poly(A)+ RNA. Proc Natl Acad Sci USA 1999, 96(11):6048-6053. 26833, 10339539.
    • (1999) Proc Natl Acad Sci USA , vol.96 , Issue.11 , pp. 6048-6053
    • Morse, D.P.1    Bass, B.L.2
  • 5
    • 0033962272 scopus 로고    scopus 로고
    • A phylogenetic analysis reveals an unusual sequence conservation within introns involved in RNA editing
    • 1369911, 10688364
    • Aruscavage PJ, Bass BL. A phylogenetic analysis reveals an unusual sequence conservation within introns involved in RNA editing. Rna 2000, 6(2):257-269. 1369911, 10688364.
    • (2000) Rna , vol.6 , Issue.2 , pp. 257-269
    • Aruscavage, P.J.1    Bass, B.L.2
  • 6
    • 0042528670 scopus 로고    scopus 로고
    • Nervous system targets of RNA editing identified by comparative genomics
    • Hoopengardner B, Bhalla T, Staber C, Reenan R. Nervous system targets of RNA editing identified by comparative genomics. Science 2003, 301(5634):832-836.
    • (2003) Science , vol.301 , Issue.5634 , pp. 832-836
    • Hoopengardner, B.1    Bhalla, T.2    Staber, C.3    Reenan, R.4
  • 7
    • 34548575784 scopus 로고    scopus 로고
    • A method for finding sites of selective adenosine deamination
    • Ohlson J, Öhman M. A method for finding sites of selective adenosine deamination. Methods Enzymol 2007, 424:289-300.
    • (2007) Methods Enzymol , vol.424 , pp. 289-300
    • Ohlson, J.1    Öhman, M.2
  • 8
    • 0035997389 scopus 로고    scopus 로고
    • RNA editing by adenosine deaminases that act on RNA
    • 1823043, 12045112
    • Bass BL. RNA editing by adenosine deaminases that act on RNA. Annu Rev Biochem 2002, 71:817-846. 1823043, 12045112.
    • (2002) Annu Rev Biochem , vol.71 , pp. 817-846
    • Bass, B.L.1
  • 9
    • 0034682706 scopus 로고    scopus 로고
    • A-to-I pre-mRNA editing in Drosophila is primarily involved in adult nervous system function and integrity
    • Palladino MJ, Keegan LP, O'Connell MA, Reenan RA. A-to-I pre-mRNA editing in Drosophila is primarily involved in adult nervous system function and integrity. Cell 2000, 102(4):437-449.
    • (2000) Cell , vol.102 , Issue.4 , pp. 437-449
    • Palladino, M.J.1    Keegan, L.P.2    O'Connell, M.A.3    Reenan, R.A.4
  • 10
    • 1042278125 scopus 로고    scopus 로고
    • Liver disintegration in the mouse embryo caused by deficiency in the RNA-editing enzyme ADAR1
    • Hartner JC, Schmittwolf C, Kispert A, Muller AM, Higuchi M, Seeburg PH. Liver disintegration in the mouse embryo caused by deficiency in the RNA-editing enzyme ADAR1. J Biol Chem 2004, 279(6):4894-4902.
    • (2004) J Biol Chem , vol.279 , Issue.6 , pp. 4894-4902
    • Hartner, J.C.1    Schmittwolf, C.2    Kispert, A.3    Muller, A.M.4    Higuchi, M.5    Seeburg, P.H.6
  • 12
    • 0034535312 scopus 로고    scopus 로고
    • Requirement of the RNA editing deaminase ADAR1 gene for embryonic erythropoiesis
    • Wang Q, Khillan J, Gadue P, Nishikura K. Requirement of the RNA editing deaminase ADAR1 gene for embryonic erythropoiesis. Science 2000, 290(5497):1765-1768.
    • (2000) Science , vol.290 , Issue.5497 , pp. 1765-1768
    • Wang, Q.1    Khillan, J.2    Gadue, P.3    Nishikura, K.4
  • 13
    • 10744222156 scopus 로고    scopus 로고
    • Identification and characterization of multi-species conserved sequences
    • 403793, 14656959
    • Margulies EH, Blanchette M, Haussler D, Green ED. Identification and characterization of multi-species conserved sequences. Genome Res 2003, 13(12):2507-2518. 403793, 14656959.
    • (2003) Genome Res , vol.13 , Issue.12 , pp. 2507-2518
    • Margulies, E.H.1    Blanchette, M.2    Haussler, D.3    Green, E.D.4
  • 14
    • 0027249595 scopus 로고
    • DbEST--database for "expressed sequence tags"
    • Boguski MS, Lowe TM, Tolstoshev CM. dbEST--database for "expressed sequence tags". Nat Genet 1993, 4(4):332-333.
    • (1993) Nat Genet , vol.4 , Issue.4 , pp. 332-333
    • Boguski, M.S.1    Lowe, T.M.2    Tolstoshev, C.M.3
  • 15
    • 12344300804 scopus 로고    scopus 로고
    • Widespread A-to-I RNA editing of Alu-containing mRNAs in the human transcriptome
    • 526178, 15534692
    • Athanasiadis A, Rich A, Maas S. Widespread A-to-I RNA editing of Alu-containing mRNAs in the human transcriptome. PLoS Biol 2004, 2(12):e391. 526178, 15534692.
    • (2004) PLoS Biol , vol.2 , Issue.12
    • Athanasiadis, A.1    Rich, A.2    Maas, S.3
  • 16
    • 10944271858 scopus 로고    scopus 로고
    • A survey of RNA editing in human brain
    • 534661, 15545495
    • Blow M, Futreal PA, Wooster R, Stratton MR. A survey of RNA editing in human brain. Genome Res 2004, 14(12):2379-2387. 534661, 15545495.
    • (2004) Genome Res , vol.14 , Issue.12 , pp. 2379-2387
    • Blow, M.1    Futreal, P.A.2    Wooster, R.3    Stratton, M.R.4
  • 17
    • 20744459167 scopus 로고    scopus 로고
    • A bioinformatic screen for novel A-I RNA editing sites reveals recoding editing in BC10
    • Clutterbuck DR, Leroy A, O'Connell MA, Semple CA. A bioinformatic screen for novel A-I RNA editing sites reveals recoding editing in BC10. Bioinformatics 2005, 21(11):2590-2595.
    • (2005) Bioinformatics , vol.21 , Issue.11 , pp. 2590-2595
    • Clutterbuck, D.R.1    Leroy, A.2    O'Connell, M.A.3    Semple, C.A.4
  • 18
    • 28544447032 scopus 로고    scopus 로고
    • A method to find tissue-specific novel sites of selective adenosine deamination
    • 1275595, 16257978
    • Ohlson J, Ensterö M, Sjöberg BM, Öhman M. A method to find tissue-specific novel sites of selective adenosine deamination. Nucleic Acids Res 2005, 33(19):e167. 1275595, 16257978.
    • (2005) Nucleic Acids Res , vol.33 , Issue.19
    • Ohlson, J.1    Ensterö, M.2    Sjöberg, B.M.3    Öhman, M.4
  • 20
    • 33749256772 scopus 로고    scopus 로고
    • RNA editing level in the mouse is determined by the genomic repeat repertoire
    • 1581974, 16940548
    • Neeman Y, Levanon EY, Jantsch MF, Eisenberg E. RNA editing level in the mouse is determined by the genomic repeat repertoire. RNA 2006, 12(10):1802-1809. 1581974, 16940548.
    • (2006) RNA , vol.12 , Issue.10 , pp. 1802-1809
    • Neeman, Y.1    Levanon, E.Y.2    Jantsch, M.F.3    Eisenberg, E.4
  • 23
    • 34247372269 scopus 로고    scopus 로고
    • Editing modifies the GABA(A) receptor subunit alpha3
    • 1852825, 17369310
    • Ohlson J, Pedersen JS, Haussler D, Öhman M. Editing modifies the GABA(A) receptor subunit alpha3. RNA 2007, 13(5):698-703. 1852825, 17369310.
    • (2007) RNA , vol.13 , Issue.5 , pp. 698-703
    • Ohlson, J.1    Pedersen, J.S.2    Haussler, D.3    Öhman, M.4
  • 25
    • 52949095033 scopus 로고    scopus 로고
    • Screening of human SNP database identifies recoding sites of A-to-I RNA editing
    • 2553741, 18772245
    • Gommans WM, Tatalias NE, Sie CP, Dupuis D, Vendetti N, Smith L, Kaushal R, Maas S. Screening of human SNP database identifies recoding sites of A-to-I RNA editing. RNA 2008, 14(10):2074-2085. 2553741, 18772245.
    • (2008) RNA , vol.14 , Issue.10 , pp. 2074-2085
    • Gommans, W.M.1    Tatalias, N.E.2    Sie, C.P.3    Dupuis, D.4    Vendetti, N.5    Smith, L.6    Kaushal, R.7    Maas, S.8
  • 27
    • 0001069505 scopus 로고
    • On the distribution of the number of successes in independent trials
    • Hoeffding W. On the distribution of the number of successes in independent trials. The Annals of Mathematical Statistics 1956, 27(3):713-721.
    • (1956) The Annals of Mathematical Statistics , vol.27 , Issue.3 , pp. 713-721
    • Hoeffding, W.1
  • 28
    • 33846056843 scopus 로고    scopus 로고
    • Entrez Gene: gene-centered information at NCBI
    • Database, 1761442, 17148475
    • Maglott D, Ostell J, Pruitt KD, Tatusova T. Entrez Gene: gene-centered information at NCBI. Nucleic Acids Res 2007, (35 Database):D26-31. 1761442, 17148475.
    • (2007) Nucleic Acids Res , Issue.35
    • Maglott, D.1    Ostell, J.2    Pruitt, K.D.3    Tatusova, T.4
  • 29
    • 0034711082 scopus 로고    scopus 로고
    • Double-stranded RNA adenosine deaminases ADAR1 and ADAR2 have overlapping specificities
    • Lehmann KA, Bass BL. Double-stranded RNA adenosine deaminases ADAR1 and ADAR2 have overlapping specificities. Biochemistry 2000, 39(42):12875-12884.
    • (2000) Biochemistry , vol.39 , Issue.42 , pp. 12875-12884
    • Lehmann, K.A.1    Bass, B.L.2
  • 30
    • 0025008168 scopus 로고
    • Sequence logos: a new way to display consensus sequences
    • 332411, 2172928
    • Schneider TD, Stephens RM. Sequence logos: a new way to display consensus sequences. Nucleic Acids Res 1990, 18(20):6097-6100. 332411, 2172928.
    • (1990) Nucleic Acids Res , vol.18 , Issue.20 , pp. 6097-6100
    • Schneider, T.D.1    Stephens, R.M.2
  • 31
    • 66349122954 scopus 로고    scopus 로고
    • Genome-wide identification of human RNA editing sites by parallel DNA capturing and sequencing
    • Li JB, Levanon EY, Yoon JK, Aach J, Xie B, Leproust E, Zhang K, Gao Y, Church GM. Genome-wide identification of human RNA editing sites by parallel DNA capturing and sequencing. Science 2009, 324(5931):1210-1213.
    • (2009) Science , vol.324 , Issue.5931 , pp. 1210-1213
    • Li, J.B.1    Levanon, E.Y.2    Yoon, J.K.3    Aach, J.4    Xie, B.5    Leproust, E.6    Zhang, K.7    Gao, Y.8    Church, G.M.9
  • 32
    • 66449129109 scopus 로고    scopus 로고
    • Large-scale mRNA sequencing determines global regulation of RNA editing during brain development
    • 2694479, 19420382
    • Wahlstedt H, Daniel C, Ensterö M, Öhman M. Large-scale mRNA sequencing determines global regulation of RNA editing during brain development. Genome Res 2009, 19:978-986. 2694479, 19420382.
    • (2009) Genome Res , vol.19 , pp. 978-986
    • Wahlstedt, H.1    Daniel, C.2    Ensterö, M.3    Öhman, M.4
  • 33
    • 53849124668 scopus 로고    scopus 로고
    • Diverse molecular functions of Hu proteins
    • 2580827, 18581050
    • Hinman MN, Lou H. Diverse molecular functions of Hu proteins. Cell Mol Life Sci 2008, 65(20):3168-3181. 2580827, 18581050.
    • (2008) Cell Mol Life Sci , vol.65 , Issue.20 , pp. 3168-3181
    • Hinman, M.N.1    Lou, H.2
  • 34
    • 38949098620 scopus 로고    scopus 로고
    • Regulation of neuron-specific alternative splicing of neurofibromatosis type 1 pre-mRNA
    • 2258745, 18086893
    • Zhu H, Hinman MN, Hasman RA, Mehta P, Lou H. Regulation of neuron-specific alternative splicing of neurofibromatosis type 1 pre-mRNA. Mol Cell Biol 2008, 28(4):1240-1251. 2258745, 18086893.
    • (2008) Mol Cell Biol , vol.28 , Issue.4 , pp. 1240-1251
    • Zhu, H.1    Hinman, M.N.2    Hasman, R.A.3    Mehta, P.4    Lou, H.5
  • 35
    • 33947584399 scopus 로고    scopus 로고
    • Notch3 and the Notch3-upregulated RNA-binding protein HuD regulate Ikaros alternative splicing
    • 1829386, 17332745
    • Bellavia D, Mecarozzi M, Campese AF, Grazioli P, Talora C, Frati L, Gulino A, Screpanti I. Notch3 and the Notch3-upregulated RNA-binding protein HuD regulate Ikaros alternative splicing. EMBO J 2007, 26(6):1670-1680. 1829386, 17332745.
    • (2007) EMBO J , vol.26 , Issue.6 , pp. 1670-1680
    • Bellavia, D.1    Mecarozzi, M.2    Campese, A.F.3    Grazioli, P.4    Talora, C.5    Frati, L.6    Gulino, A.7    Screpanti, I.8
  • 36
    • 33845380816 scopus 로고    scopus 로고
    • A nuclear function of Hu proteins as neuron-specific alternative RNA processing regulators
    • 1679676, 17035636
    • Zhu H, Hasman RA, Barron VA, Luo G, Lou H. A nuclear function of Hu proteins as neuron-specific alternative RNA processing regulators. Mol Biol Cell 2006, 17(12):5105-5114. 1679676, 17035636.
    • (2006) Mol Biol Cell , vol.17 , Issue.12 , pp. 5105-5114
    • Zhu, H.1    Hasman, R.A.2    Barron, V.A.3    Luo, G.4    Lou, H.5
  • 38
    • 0036226603 scopus 로고    scopus 로고
    • BLAT--the BLAST-like alignment tool
    • 187518, 11932250
    • Kent WJ. BLAT--the BLAST-like alignment tool. Genome Res 2002, 12(4):656-664. 187518, 11932250.
    • (2002) Genome Res , vol.12 , Issue.4 , pp. 656-664
    • Kent, W.J.1
  • 39
    • 0019876473 scopus 로고
    • Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information
    • 326673, 6163133
    • Zuker M, Stiegler P. Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information. Nucleic Acids Res 1981, 9(1):133-148. 326673, 6163133.
    • (1981) Nucleic Acids Res , vol.9 , Issue.1 , pp. 133-148
    • Zuker, M.1    Stiegler, P.2
  • 40
    • 0042838304 scopus 로고    scopus 로고
    • Recognition of double-stranded RNA by proteins and small molecules
    • Carlson CB, Stephens OM, Beal PA. Recognition of double-stranded RNA by proteins and small molecules. Biopolymers 2003, 70(1):86-102.
    • (2003) Biopolymers , vol.70 , Issue.1 , pp. 86-102
    • Carlson, C.B.1    Stephens, O.M.2    Beal, P.A.3
  • 41
    • 0344035669 scopus 로고    scopus 로고
    • The importance of internal loops within RNA substrates of ADAR1
    • Lehmann KA, Bass BL. The importance of internal loops within RNA substrates of ADAR1. J Mol Biol 1999, 291(1):1-13.
    • (1999) J Mol Biol , vol.291 , Issue.1 , pp. 1-13
    • Lehmann, K.A.1    Bass, B.L.2
  • 45
    • 0022376704 scopus 로고
    • Dating of the human-ape splitting by a molecular clock of mitochondrial DNA
    • Hasegawa M, Kishino H, Yano T. Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. J Mol Evol 1985, 22(2):160-174.
    • (1985) J Mol Evol , vol.22 , Issue.2 , pp. 160-174
    • Hasegawa, M.1    Kishino, H.2    Yano, T.3
  • 46
    • 0032945593 scopus 로고    scopus 로고
    • DIALIGN 2: improvement of the segment-to-segment approach to multiple sequence alignment
    • Morgenstern B. DIALIGN 2: improvement of the segment-to-segment approach to multiple sequence alignment. Bioinformatics 1999, 15(3):211-218.
    • (1999) Bioinformatics , vol.15 , Issue.3 , pp. 211-218
    • Morgenstern, B.1
  • 47
    • 0003685012 scopus 로고
    • The mathematical theory of communication
    • Urbana, Illinois: The University of Illinois Press
    • Shannon CE, Weaver W. The mathematical theory of communication. 1949, Urbana, Illinois: The University of Illinois Press.
    • (1949)
    • Shannon, C.E.1    Weaver, W.2
  • 48
    • 33751381461 scopus 로고    scopus 로고
    • TimeTree: a public knowledge-base of divergence times among organisms
    • Hedges SB, Dudley J, Kumar S. TimeTree: a public knowledge-base of divergence times among organisms. Bioinformatics 2006, 22(23):2971-2972.
    • (2006) Bioinformatics , vol.22 , Issue.23 , pp. 2971-2972
    • Hedges, S.B.1    Dudley, J.2    Kumar, S.3
  • 49
    • 0033625531 scopus 로고    scopus 로고
    • TEXshade: shading and labeling of multiple sequence alignments using LATEX2 epsilon
    • Beitz E. TEXshade: shading and labeling of multiple sequence alignments using LATEX2 epsilon. Bioinformatics 2000, 16(2):135-139.
    • (2000) Bioinformatics , vol.16 , Issue.2 , pp. 135-139
    • Beitz, E.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.