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Volumn 108, Issue 27, 2011, Pages 11093-11098

Using positional distribution to identify splicing elements and predict pre-mRNA processing defects in human genes

Author keywords

[No Author keywords available]

Indexed keywords

HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN; MESSENGER RNA; SERINE ARGININE RICH PROTEIN;

EID: 79960594889     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1101135108     Document Type: Article
Times cited : (226)

References (46)
  • 1
    • 0036242097 scopus 로고    scopus 로고
    • Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis
    • DOI 10.1017/S1355838202021088
    • Jurica MS, Licklider LJ, Gygi SR, Grigorieff N, Moore MJ (2002) Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis. RNA 8:426-439. (Pubitemid 34437714)
    • (2002) RNA , vol.8 , Issue.4 , pp. 426-439
    • Jurica, M.S.1    Licklider, L.J.2    Gygi, S.P.3    Grigorieff, N.4    Moore, M.J.5
  • 3
    • 0036161499 scopus 로고    scopus 로고
    • The spliceosome: No assembly required?
    • Nilsen TW (2002) The spliceosome: No assembly required? Mol Cell 9:8-9.
    • (2002) Mol Cell , vol.9 , pp. 8-9
    • Nilsen, T.W.1
  • 4
    • 34547647038 scopus 로고    scopus 로고
    • Proteomic analysis of in vivo-assembled pre-mRNA splicing complexes expands the catalog of participating factors
    • Chen YI, et al. (2007) Proteomic analysis of in vivo-assembled pre-mRNA splicing complexes expands the catalog of participating factors. Nucleic Acids Res 35:3928-3944.
    • (2007) Nucleic Acids Res , vol.35 , pp. 3928-3944
    • Chen, Y.I.1
  • 5
    • 0344198459 scopus 로고    scopus 로고
    • The spliceosome: The most complex macromolecular machine in the cell?
    • Nilsen TW (2003) The spliceosome: the most complex macromolecular machine in the cell? Bioessays 25:1147-1149.
    • (2003) Bioessays , vol.25 , pp. 1147-1149
    • Nilsen, T.W.1
  • 6
    • 0037068447 scopus 로고    scopus 로고
    • Comprehensive proteomic analysis of the human spliceosome
    • DOI 10.1038/nature01031
    • Zhou Z, Licklider LJ, Gygi SP, Reed R (2002) Comprehensive proteomic analysis of the human spliceosome. Nature 419:182-185. (Pubitemid 35025448)
    • (2002) Nature , vol.419 , Issue.6903 , pp. 182-185
    • Zhou, Z.1    Licklider, L.J.2    Gygi, S.P.3    Reed, R.4
  • 8
    • 0033846543 scopus 로고    scopus 로고
    • Multiple splicing defects in an intronic false exon
    • DOI 10.1128/MCB.20.17.6414-6425.2000
    • Sun H, Chasin LA (2000) Multiple splicing defects in an intronic false exon. Mol Cell Biol 20:6414-6425. (Pubitemid 30650229)
    • (2000) Molecular and Cellular Biology , vol.20 , Issue.17 , pp. 6414-6425
    • Sun, H.1    Chasin, L.A.2
  • 10
    • 15544379277 scopus 로고    scopus 로고
    • Are splicing mutations the most frequent cause of hereditary disease?
    • Lopez-Bigas N, Audit B, Ouzounis C, Parra G, Guigo R (2005) Are splicing mutations the most frequent cause of hereditary disease? FEBS Lett 579:1900-1903.
    • (2005) FEBS Lett , vol.579 , pp. 1900-1903
    • Lopez-Bigas, N.1    Audit, B.2    Ouzounis, C.3    Parra, G.4    Guigo, R.5
  • 13
    • 0037047644 scopus 로고    scopus 로고
    • Predictive identification of exonic splicing enhancers in human genes
    • DOI 10.1126/science.1073774
    • Fairbrother WG, Yeh RF, Sharp PA, Burge CB (2002) Predictive identification of exonic splicing enhancers in human genes. Science 297:1007-1013. (Pubitemid 34856033)
    • (2002) Science , vol.297 , Issue.5583 , pp. 1007-1013
    • Fairbrother, W.G.1    Yeh, R.-F.2    Sharp, P.A.3    Burge, C.B.4
  • 15
    • 0029767662 scopus 로고    scopus 로고
    • SR proteins and splicing control
    • Manley JL, Tacke R (1996) SR proteins and splicing control. Genes Dev 10:1569-1579. (Pubitemid 26268863)
    • (1996) Genes and Development , vol.10 , Issue.13 , pp. 1569-1579
    • Manley, J.L.1    Tacke, R.2
  • 16
    • 33244483620 scopus 로고    scopus 로고
    • Intronic binding sites for hnRNP A/B and hnRNP F/H proteins stimulate pre-mRNA splicing
    • Martinez-Contreras R, et al. (2006) Intronic binding sites for hnRNP A/B and hnRNP F/H proteins stimulate pre-mRNA splicing. PLoS Biol 4:e21.
    • (2006) PLoS Biol , vol.4
    • Martinez-Contreras, R.1
  • 17
    • 0024117031 scopus 로고
    • RNA binding specificity of hnRNP proteins: A subset bind to the 3? end of introns
    • Swanson MS, Dreyfuss G (1988) RNA binding specificity of hnRNP proteins: A subset bind to the 3? end of introns. EMBO J 7:3519-3529.
    • (1988) EMBO J , vol.7 , pp. 3519-3529
    • Swanson, M.S.1    Dreyfuss, G.2
  • 18
    • 0032029767 scopus 로고    scopus 로고
    • SR protein and snRNP requirements for assembly of the rous sarcoma virus negative regulator of splicing complex in vitro
    • DOI 10.1006/viro.1997.8983
    • Cook CR, McNally MT (1998) SR protein and snRNP requirements for assembly of the Rous sarcoma virus negative regulator of splicing complex in vitro. Virology 242:211-220. (Pubitemid 28396374)
    • (1998) Virology , vol.242 , Issue.1 , pp. 211-220
    • Cook, C.R.1    McNally, M.T.2
  • 19
    • 0030061154 scopus 로고    scopus 로고
    • SR protein splicing factors interact with the Rous sarcoma virus negative regulator of splicing element
    • McNally LM, McNally MT (1996) SR protein splicing factors interact with the Rous sarcoma virus negative regulator of splicing element. J Virol 70:1163-1172. (Pubitemid 26029038)
    • (1996) Journal of Virology , vol.70 , Issue.2 , pp. 1163-1172
    • McNally, L.M.1    McNally, M.T.2
  • 20
    • 0032527760 scopus 로고    scopus 로고
    • Genetic analysis of the SR protein ASF/SF2: Interchangeability of RS domains and negative control of splicing
    • Wang J, Xiao SH, Manley JL (1998) Genetic analysis of the SR protein ASF/SF2: interchangeability of RS domains and negative control of splicing. Genes Dev 12:2222-2233. (Pubitemid 28348045)
    • (1998) Genes and Development , vol.12 , Issue.14 , pp. 2222-2233
    • Wang, J.1    Xiao, S.-H.2    Manley, J.L.3
  • 21
    • 0030013179 scopus 로고    scopus 로고
    • Inhibition by SR proteins splicing of a regulated adenovirus pre-mRNA
    • DOI 10.1038/381535a0
    • Kanopka A, Muhlemann O, Akusjarvi G (1996) Inhibition by SR proteins of splicing of a regulated adenovirus pre-mRNA. Nature 381:535-538. (Pubitemid 26170934)
    • (1996) Nature , vol.381 , Issue.6582 , pp. 535-538
    • Kanopka, A.1    Muhlemann, O.2    Akusjarvi, G.3
  • 22
    • 17044427579 scopus 로고    scopus 로고
    • Serine/arginine-rich protein-dependent suppression of exon skipping by exonic splicing enhancers
    • Ibrahim EC, Schaal TD, Hertel KJ, Reed R, Maniatis T (2005) Serine/arginine-rich protein-dependent suppression of exon skipping by exonic splicing enhancers. Proc Natl Acad Sci USA 102:5002-5007.
    • (2005) Proc Natl Acad Sci USA , vol.102 , pp. 5002-5007
    • Ibrahim, E.C.1    Schaal, T.D.2    Hertel, K.J.3    Reed, R.4    Maniatis, T.5
  • 23
    • 33745207758 scopus 로고    scopus 로고
    • Comparative analysis identifies exonic splicing regulatory sequences - The complex definition of enhancers and silencers
    • Goren A, et al. (2006) Comparative analysis identifies exonic splicing regulatory sequences - The complex definition of enhancers and silencers. Mol Cell 22:769-781.
    • (2006) Mol Cell , vol.22 , pp. 769-781
    • Goren, A.1
  • 25
    • 59649107040 scopus 로고    scopus 로고
    • An RNA code for the FOX2 splicing regulator revealed by mapping RNA-protein interactions in stem cells
    • Yeo GW, et al. (2009) An RNA code for the FOX2 splicing regulator revealed by mapping RNA-protein interactions in stem cells. Nat Struct Mol Biol 16:130-137.
    • (2009) Nat Struct Mol Biol , vol.16 , pp. 130-137
    • Yeo, G.W.1
  • 26
    • 77954387023 scopus 로고    scopus 로고
    • iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution
    • Konig J, et al. (2010) iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution. Nat Struct Mol Biol 17:909-915.
    • (2010) Nat Struct Mol Biol , vol.17 , pp. 909-915
    • Konig, J.1
  • 27
    • 0029055472 scopus 로고
    • Distinct binding specificities and functions of higher eukaryotic polypyrimidine tract-binding proteins
    • Singh R, Valcarcel J, Green MR (1995) Distinct binding specificities and functions of higher eukaryotic polypyrimidine tract-binding proteins. Science 268:1173-1176.
    • (1995) Science , vol.268 , pp. 1173-1176
    • Singh, R.1    Valcarcel, J.2    Green, M.R.3
  • 28
    • 0033017499 scopus 로고    scopus 로고
    • The splicing factors 9G8 and SRp20 transactivate splicing through different and specific enhancers
    • DOI 10.1017/S1355838299981967
    • Cavaloc Y, Bourgeois CF, Kister L, Stevenin J (1999) The splicing factors 9G8 and SRp20 transactivate splicing through different and specific enhancers. RNA 5:468-483. (Pubitemid 29125005)
    • (1999) RNA , vol.5 , Issue.3 , pp. 468-483
    • Cavaloc, Y.1    Bourgeois, C.F.2    Kister, L.3    Stevenin, J.4
  • 29
    • 0029064220 scopus 로고
    • The human splicing factors ASF/SF2 and SC35 possess distinct, functionally significant RNA binding specificities
    • Tacke R, Manley JL (1995) The human splicing factors ASF/SF2 and SC35 possess distinct, functionally significant RNA binding specificities. EMBO J 14:3540-3551.
    • (1995) EMBO J , vol.14 , pp. 3540-3551
    • Tacke, R.1    Manley, J.L.2
  • 30
    • 0028215301 scopus 로고
    • RNA binding specificity of hnRNP A1: Significance of hnRNP A1 high-affinity binding sites in pre-mRNA splicing
    • Burd CG, Dreyfuss G (1994) RNA binding specificity of hnRNP A1: Significance of hnRNP A1 high-affinity binding sites in pre-mRNA splicing. EMBO J 13:1197-1204. (Pubitemid 24074726)
    • (1994) EMBO Journal , vol.13 , Issue.5 , pp. 1197-1204
    • Burd, C.G.1    Dreyfuss, G.2
  • 31
    • 0027992089 scopus 로고
    • The determinants of RNA-binding specificity of the heterogeneous nuclear ribonucleoprotein C proteins
    • Gorlach M, Burd CG, Dreyfuss G (1994) The determinants of RNA-binding specificity of the heterogeneous nuclear ribonucleoprotein C proteins. J Biol Chem 269: 23074-23078. (Pubitemid 24283289)
    • (1994) Journal of Biological Chemistry , vol.269 , Issue.37 , pp. 23074-23078
    • Gorlach, M.1    Burd, C.G.2    Dreyfuss, G.3
  • 33
    • 84972893020 scopus 로고
    • A dendrite method for cluster analysis
    • Calinski T, Harabasz J (1974) A dendrite method for cluster analysis. Commun Stat 1-27.
    • (1974) Commun Stat , pp. 1-27
    • Calinski, T.1    Harabasz, J.2
  • 34
    • 33751361304 scopus 로고    scopus 로고
    • Inference of splicing regulatory activities by sequence neighborhood analysis
    • Stadler MB, et al. (2006) Inference of splicing regulatory activities by sequence neighborhood analysis. PLoS Genet 2(11):e191.
    • (2006) PLoS Genet , vol.2 , Issue.11
    • Stadler, M.B.1
  • 35
    • 0035941211 scopus 로고    scopus 로고
    • Determination of the RNA binding specificity of the heterogeneous nuclear ribonucleoprotein (hnRNP) H/H'/F/2H9 family
    • Caputi M, Zahler AM (2001) Determination of the RNA binding specificity of the heterogeneous nuclear ribonucleoprotein (hnRNP) H/H'/F/2H9 family. J Biol Chem 276:43850-43859.
    • (2001) J Biol Chem , vol.276 , pp. 43850-43859
    • Caputi, M.1    Zahler, A.M.2
  • 36
    • 0034461083 scopus 로고    scopus 로고
    • An intronic splicing enhancer binds U1 snRNPs to enhance splicing and select 5′ splice sites
    • DOI 10.1128/MCB.20.24.9225-9235.2000
    • McCullough AJ, Berget SM (2000) An intronic splicing enhancer binds U1 snRNPs to enhance splicing and select 5′ splice sites. Mol Cell Biol 20:9225-9235. (Pubitemid 32246109)
    • (2000) Molecular and Cellular Biology , vol.20 , Issue.24 , pp. 9225-9235
    • McCullough, A.J.1    Berget, S.M.2
  • 37
    • 73249131626 scopus 로고    scopus 로고
    • Next-generation SELEX identifies sequence and structural determinants of splicing factor binding in human pre-mRNA sequence
    • Reid DC, et al. (2009) Next-generation SELEX identifies sequence and structural determinants of splicing factor binding in human pre-mRNA sequence. RNA 15:2385-2397.
    • (2009) RNA , vol.15 , pp. 2385-2397
    • Reid, D.C.1
  • 40
    • 0034974850 scopus 로고    scopus 로고
    • TFIIS enhances transcriptional elongation through an artificial arrest site in vivo
    • DOI 10.1128/MCB.21.13.4162-4168.2001
    • Kulish D, Struhl K (2001) TFIIS enhances transcriptional elongation through an artificial arrest site in vivo. Mol Cell Biol 21:4162-4168. (Pubitemid 32565298)
    • (2001) Molecular and Cellular Biology , vol.21 , Issue.13 , pp. 4162-4168
    • Kulish, D.1    Struhl, K.2
  • 43
    • 77955894067 scopus 로고    scopus 로고
    • Antisense correction of SMN2 splicing in the CNS rescues necrosis in a type III SMA mouse model
    • Hua Y, et al. (2010) Antisense correction of SMN2 splicing in the CNS rescues necrosis in a type III SMA mouse model. Genes Dev 24:1634-1644.
    • (2010) Genes Dev , vol.24 , pp. 1634-1644
    • Hua, Y.1
  • 44
    • 10944256767 scopus 로고    scopus 로고
    • Systematic identification and analysis of exonic splicing silencers
    • DOI 10.1016/j.cell.2004.11.010, PII S0092867404010566
    • Wang Z, et al. (2004) Systematic identification and analysis of exonic splicing silencers. Cell 119:831-845. (Pubitemid 40017689)
    • (2004) Cell , vol.119 , Issue.6 , pp. 831-845
    • Wang, Z.1    Rolish, M.E.2    Yeo, G.3    Tung, V.4    Mawson, M.5    Burge, C.B.6
  • 45
    • 0027507225 scopus 로고
    • Direct selection for mutations affecting specific splice sites in a hamster dihydrofolate reductase minigene
    • Chen IT, Chasin LA (1993) Direct selection for mutations affecting specific splice sites in a hamster dihydrofolate reductase minigene. Mol Cell Biol 13:289-300.
    • (1993) Mol Cell Biol , vol.13 , pp. 289-300
    • Chen, I.T.1    Chasin, L.A.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.