Publications
Cooper, T.A., Neutralizing toxic RNA. Science (In press)
Goo, Y.H. and Cooper, T.A. 2009CUGBP2 directly interacts with U2 17S snRNP components and promotes U2 snRNA binding to cardiac troponin T pre-mRNA. Nucl. Acids Res. (In press).
Lee, J.E. and Cooper, T.A. Pathogenic Mechanisms of Myotonic Dystrophy. Biochem Soc Trans. (In press)
Cooper, T.A., Wan, L., and Dreyfuss, G. RNA and disease. (2009) Cell 136, 777–793.
Kalsotra, A., Tran, D., Ward, A., Xiao, X., Burge, C.B., Castle, J.M., Johnson, J.C., and Cooper, T.A. (2008) A conserved program of regulated alternative splicing during vertebrate heart development . Proc. Nat'l Acad. Sci. 105, 20333-20338 PubMed
Castle, J.C., Zhang, C., Shah, J.K, Kulkarni, A.V., Kalsotra, A. Cooper, T.A ., and Johnson, J.M. (2008) Differential expression of 24,426 human alternative splicing events and predicted cis-regulation in 48 tissues and cell lines. Nat. Genet. 40, 1416-1425 . PubMed
Orengo, J.P., Chambon, P., Metzger, D., Mosier, D.R., Snipes, G.J. and Cooper, T.A. (2008) Expanded CTG repeats within the DMPK 3¹ UTR causes severe skeletal muscle wasting in an inducible mouse model for myotonic dystrophy. Proc. Nat¹l Acad. Sci. 105, 2646-2651. PubMed
Kuyumcu-Martinez, N.M., Wang, G.S., and Cooper, T.A. (2007) Increased steady state levels of CUG-BP1 in Myotonic Dystrophy 1 are due to PKC-mediated hyper-phosphorylation. Mol. Cell 28, 68-78. PubMed
Wang, G.S., Kearney, D.L., De Biasi, M., Taffet, G.E., and Cooper, T.A. (2007) Elevation of RNA-binding protein CUGBP1 is an early event in an inducible heart-specific mouse model of myotonic dystrophy. J. Clin. Invest. 117, 2802-2811. PubMed
Orengo, J.P. and Cooper, T.A. (2007) Alternative splicing in disease in Alternative splicing in the post-genomic era, B.R. Graveley and B. Blencowe, ed. Landes publishing; pp. 212-223.
Chapple , J.P., Anthony, K., Martin, T.R., Cooper, J.D. , Cooper, T.A., and Gallo, J-M. (2007) Expression, localization and Tau Exon 10 splicing activity of the brain RNA-binding protein TNRC4. Hum. Mol. Gen. 16, 2760-2769 . PubMed
Dhaenens , C.M. , Schraen-Maschke , S. , Vingtdeux , V. , Vanbrussel , E. , Leroy , O. , Delplanque , J., Tran , H., Delacourte , A. , Vermersch , P. , Gruffat , H. , Sergeant , A , Mahadevan , M. , Ishiura , S. , Buée , L: , Cooper, T.A. , Caillet-Boudin , M.L. , Charlet-Berguerand , N. , Sablonnière , B. , and Sergeant , N. Altered splicing of Tau and MBNL1 by long expanded CUG repeats in Myotonic Dystrophy of Type I brain: new insights in DM1 pathophysiology. Experimental Neurology (In Press)
Wang, G.S. and Cooper T.A. (2007) Splicing in disease: disruption of the splicing code and the decoding machinery. Nature Rev. Genet. 8, 749-761.PubMed
Cooper, T.A. (2007) Regulation of chloride ion conductance during skeletal muscle development and in disease. Amer. J. Physiol: Cell Physiology 292, C1245-1247.PubMed
Bland, C.S. and Cooper, T.A. (2007) Micromanaging alternative splicing during muscle differentiation Dev Cell 12, 171-17.PubMed
Cooper, T.A. (2006) A reversal of fortune for myotonic dystrophy? N Engl J Med. 355, 1825-1827. PubMed
Ranum L.P. and Cooper, T.A. (2006) RNA-mediated neuromuscular disorders. Ann. Rev. Neuroscience, 29, 259-277. PubMed
Orengo, J., Bundman, D., and Cooper, T.A. (2006) A bichromatic fluorescent reporter for cell-based screens of alternative splicing Nucl. Acids Res. 34, e148. PubMed
Singh, G, N. and Cooper, T.A. (2006) A minigene reporter for identification and analysis of cis elements and trans factors affecting pre-mRNA splicing.(2006) BioTechniques 41,177-181. PubMed
de Haro, M., Al-Ramahi, I,, De Gouyon, B., Ukani, L., Rosa, A., Faustino, N.A., Ashizawa, T., Cooper, T.A. and Botas, J. (2006) MBNL1 and CUGBP1 modify expanded CUG-induced toxicity in a Drosophila model of Myotonic Dystrophy Type 1. Hum. Mol. Gen. 15, 2138-2145. PubMed
Thornton, C.A., Swanson, M.S., and Cooper, T.A. (2006) The RNA-mediated disease process in myotonic dystrophy. In Genetic Instabilities and Hereditary Neurological Diseases (Second Edition). T. Ashizawa and R.D. Wells (Eds.). p. 37-54.
Kuyumcu-Martinez, N.M. and Cooper, T.A. (2006) Mis-regulation of alternative splicing causes pathogenesis in myotonic dystrophy. Progress in Molecular and Subcellular Biology 44, 133-159. PubMed
Cooper, T.A. (2005) Use of minigene systems to dissect alternative splicing elements. Methods 37, 331-340 PubMed
Ladd, A.N., Taffet, G.E., Hartley, C., Kearney, D.L. and Cooper, T.A. (2005) Cardiac-specific repression of CELF activity disrupts alternative splicing and causes cardiomyopathy. Mol. Cell. Biol. 25, 6267-6278 PubMed
Leroy, O., Wang, J., Maurage, C.A., Parent, M., Cooper, T., Buee, L., Sergeant, N., Andreadis, A., Caillet-Boudin, M.L. (2006) Brain-specific change in alternative splicing of Tau exon 6 in myotonic dystrophy type 1. Biochim Biophys Acta. 1762, 460-467.
Han, J. and Cooper, T.A. (2005) Characterization of CELF splicing activation and repression domains in vivo Nucl. Acids Res. 33, 2769-2780 PubMed
Ho, T., Bundman, D., Armstrong, D.L., and Cooper, T.A. (2005) Transgenic mice expressing CUG-BP1 reproduce the myotonic dystrophy pattern of splicing. Hum. Mol. Genet. 14, 1539-1547. PubMed
Ladd, A.L. Stenberg, M.G., Swanson, M.S., and Cooper, T.A. (2005) A dynamic balance between activation and repression regulates pre-mRNA alternative splicing during heart development. Dev. Dyn. 233, 783-793. PubMed
Ho, T., Savkur, R.S., Poulos, M., Mancini., M.M., Swanson, M.S., and Cooper, T.A. (2005) Co-localization of muscleblind with RNA foci is separable from mis-regulation of alternative splicing in myotonic dystrophy J. Cell Science 118, 2923-2933. PubMed
Cooper, T.A. (2005) Alternative splicing regulation impacts heart development. Cell 120, 1-2. PubMed
Cooper, T. A. (2005) In vivo SELEX strategies, p. 840-852. In R. K. Hartmann, A. Bindereif, A. Schon, and E. Westhof (ed.), Handbook of RNA Biochemistry, vol. 2. Wiley-VCH Verlag GmbH and Co, Weinheim.
Faustino, N.A. and Cooper, T.A. (2005) Identification of putative new splicing targets for ETR-3 using its SELEX sequences. Mol. Cell. Biol. 25, 879-887.PubMed
Ladd, A.N. and Cooper, T.A. (2004) Nuclear-cytoplasmic localization of the RNA binding protein ETR-3 is controlled by multiple localization elements. J. Cell Science 117, 3519-3529. PubMed
Ho, T., Charlet-B., N., Poulos, M., Singh, G., Swanson, M.S., and Cooper, T.A. (2004) Muscleblind proteins regulate alternative splicing. EMBO J. 23, 3103-3112.PubMed
Singh, G., Charlet-B., N., Han, J., and Cooper, T.A. (2004) ETR-3 and CELF4 protein domains required for RNA binding and splicing activity in vivo. Nucl. Acids Res. 32, 1232-1241.PubMed
Ladd, A.N., Nguyen, N.H. Malhotra, K and Cooper, T.A. (2004) CELF6, a member of the CELF family of RNA binding proteins, regulates MSE-dependent alternative splicing. J. Biol. Chem. 279,17756-17764.PubMed
Savkur, R.S., Philips, A.V., Cooper, T.A., Dalton, J.C., Moseley, M.L., Ranum, L.P.W., Day, J.W. (2004) Insulin receptor splicing alteration in myotonic dystrophy type 2. Am. J. Hum. Genet. 74:1309-1313.PubMed
Faustino, N.A. and Cooper, T.A. (2003) RNA splicing and human disease. Genes Dev. 17, 419-437. PubMed
Gromak, N., Matlin, A.J., Cooper, T.A., and Smith, C.W.J. (2003) Antagonistic regulation of alpha-actinin alternative splicing by CELF proteins and polypyrimidine tract binding protein. RNA 9, 443-456.PubMed
Ladd, A.N., Cooper, T.A. (2002) Finding signals that regulate alternative splicing in the post-genomic era. Genome Biology 3, 8.1-8.16. PubMed
Timchenko LT, Tapscott SJ, Cooper TA, Monckton DG. (2002) Myotonic dystrophy: discussion of molecular basis. Adv Exp Med Biol. 516, 27-45.PubMed
Charlet-B., Singh, G, N., Philips, A.V., Grice, E.A., and Cooper, T.A (2002). Loss of the muscle-specific chloride channel in type 1 myotonic dystrophy due to misregulated alternative splicing. Mol. Cell 10, 45-53. PubMed
Charlet-B., Singh, G, N., Logan, P.E., and Cooper, T.A. (2002) Dynamic antagonism between CELF proteins and PTB regulate splicing of a muscle-specific exon in both muscle and nonmuscle cells. Mol. Cell 9, 649-658.PubMed
Cooper, T.A. (2001) Highlights of alternative splicing regulation session: yes, no, maybe--a history of paradigm shifts. Science STKE. Oct 23;2001(105):PE35.PubMed
Savkur, R., Philips, A.V., and Cooper, T.A. (2001) Aberrant regulation of insulin receptor alternative splicing is associated with insulin resistance in myotonic dystrophy. Nat Gen. 29, 40-47.PubMed
Stickeler, E., Fraser, S.D., Honig, A., Chen, A.L., Berget, S.M. and Cooper, T.A. (2001) The RNA binding protein YB-1 recognizes A/C-rich exon enhancers and stimulates splicing of the CD44 alternative exon v4. EMBO J. 20, 3821-3830.PubMed
Ladd, A.N., Charlet-B., N., and Cooper, T.A. (2001) The CELF family of RNA binding proteins is implicated in cell-specific and developmentally regulated alternative splicing Mol. Cell. Biol. 21,1285-1296.PubMed
Ryan, K.J., Charlet-B., N., and Cooper, T.A. (2000) Binding of purH to a muscle-specific splicing enhancer correlates with exon inclusion in vivo. J. Biol. Chem. 275, 20618-20626.PubMed
Philips, A.V. and Cooper, T.A. (2000) RNA and human disease. Cell. Mol. Life Sci. 57, 235-249.PubMed
Stark, J.M., Cooper, T.A., Roth M.B. (1999) The relative strengths of SR protein-mediated associations of alternative and constitutive exons can influence alternative splicing. J. Biol. Chem., 274, 29838-29842.PubMed
Cooper, T.A. (1999) Strategies for defining pre-mRNA cis elements that regulate cell specific splicing in "RNA-Protein Interactions", Susan R. Haynes, Ed.; Methods in Molecular Biology Series, John M. Walker, Ed., (Humana Press), vol. 118, 391-403.PubMed
Cooper, T.A. (1999) In vivo SELEX in vertebrate cells in "RNA-Protein Interactions", Susan R. Haynes, Ed.; Methods in Molecular Biology Series, John M. Walker, Ed., (Humana Press), vol 118, 405-417.PubMed
Stoss, O., Cooper, T.A., and Stamm, S. (1999) Alternative splicing determines the intracellular localization of the muscle specific nucleolar proteins NOP30-1 and NOP30-2. J. Biol.Chem. 274, 10951-10962.PubMed
Cooper, T.A. (1998) Muscle-specific splicing of a heterologous exon mediated by a single muscle-specific splicing enhancer from the cardiac troponin T gene. Mol. Cell. Biol. 18, 4519-4525.PubMed
Philips, A.V., Timchenko, L.T., and Cooper, T.A. (1998) Disruption of splicing regulated by a CUG-binding protein in myotonic dystrophy. Science 280, 737-741.PubMed
Elrick, L.L., Humphrey, M.B., Cooper, T.A., and Berget, S.M. (1998) A short sequence within two purine-rich enhancers determines 5' splice site specificity. Mol. Cell. Biol. 18, 343-352.PubMed
Cooper, T.A. and Mattox, W. (1997) The regulation of splice site selection and its role in human disease. Amer. J. Hum. Gen. 61, 259-266.
Coulter, L., Landree, M., and Cooper, T.A. (1997) Identification of a new class of exonic splicing enhancers by in vivo selection. Mol. Cell. Biol. 17, 2143-2150.PubMed
Ryan, K.J. and Cooper, T.A. (1996) Muscle-specific splicing enhancers regulate inclusion of the cardiac troponin T alternative exon in embryonic skeletal muscle. Mol. Cell. Biol. 16, 4014-4023.PubMed
Ramchatesingh, J., Zahler, A.M., Neugebauer, K.M., Roth, M.B. and Cooper, T.A. (1995) A subset of SR proteins activates splicing of the cardiac troponin T alternative exon by direct interactions with an exonic enhancer. Mol. Cell. Biol. 15, 4898-4907.PubMed
Humphrey, M.B., Bryan, J., Cooper, T.A., Berget, S.M. (1995) A 32 nucleotide exon splicing enhancer regulates usage of competing 5' splice sites in a differential internal exon. Mol. Cell. Biol. 15, 3979-3988.PubMed
Lee, A.B. and Cooper, T.A. (1995) An improved direct PCR screen of bacterial colonies: wooden toothpicks inhibit PCR amplification. BioTechniques 18, 225-226.
Xu, R., Teng, J., and Cooper, T.A. (1993). The cardiac troponin T alternative exon contains a novel purine-rich positive splicing element. Mol. Cell. Biol. 13, 3660-3674. PubMed
Cooper, T.A. (1992). In vitro splicing of cardiac troponin T precursors: exon mutations disrupt splicing of the upstream intron. J. Biol. Chem. 267, 5330-5338.PubMed