T A Cooper

Summary

Affiliation: Texas Medical Center
Country: USA

Publications

  1. pmc A bichromatic fluorescent reporter for cell-based screens of alternative splicing
    James P Orengo
    Department of Pathology, Baylor College of Medicine, Houston, TX 77030, USA
    Nucleic Acids Res 34:e148. 2006
  2. pmc Identification of CELF splicing activation and repression domains in vivo
    Jin Han
    Department of Pathology, Baylor College of Medicine Houston, TX 77030, USA
    Nucleic Acids Res 33:2769-80. 2005
  3. pmc RNA and disease
    Thomas A Cooper
    Department of Pathology, Baylor College of Medicine, Houston, TX 77030, USA
    Cell 136:777-93. 2009
  4. pmc Muscle-specific splicing of a heterologous exon mediated by a single muscle-specific splicing enhancer from the cardiac troponin T gene
    T A Cooper
    Departments of Pathology and Cell Biology, Baylor College of Medicine, Houston, Texas 77030, USA
    Mol Cell Biol 18:4519-25. 1998
  5. ncbi request reprint Highlights of alternative splicing regulation session: yes, no, maybe--a history of paradigm shifts
    T A Cooper
    Departments of Pathology and Molecular and Cellular Biology, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA
    Sci STKE 2001:pe35. 2001
  6. pmc Finding signals that regulate alternative splicing in the post-genomic era
    Andrea N Ladd
    Department of Pathology, Baylor College of Medicine, Houston, TX 77030, USA
    Genome Biol 3:reviews0008. 2002
  7. pmc The CELF family of RNA binding proteins is implicated in cell-specific and developmentally regulated alternative splicing
    A N Ladd
    Department of Pathology, Baylor College of Medicine, Houston, Texas 77030, USA
    Mol Cell Biol 21:1285-96. 2001
  8. ncbi request reprint Aberrant regulation of insulin receptor alternative splicing is associated with insulin resistance in myotonic dystrophy
    R S Savkur
    Department of Pathology, Baylor College of Medicine, One Baylor Plaza, Houston, Texas, USA
    Nat Genet 29:40-7. 2001
  9. pmc A subset of SR proteins activates splicing of the cardiac troponin T alternative exon by direct interactions with an exonic enhancer
    J Ramchatesingh
    Department of Pathology, Baylor College of Medicine, Houston, Texas 77030, USA
    Mol Cell Biol 15:4898-907. 1995
  10. pmc Identification of a new class of exonic splicing enhancers by in vivo selection
    L R Coulter
    Department of Pathology, Baylor College of Medicine, Houston, Texas 77030, USA
    Mol Cell Biol 17:2143-50. 1997

Collaborators

  • Gideon Dreyfuss
  • J W Day
  • K M Neugebauer
  • J M Gallo
  • Dawna Duncan Armstrong
  • Andrea N Ladd
  • Thai H Ho
  • Gopal Singh
  • Guey Shin Wang
  • James P Orengo
  • Nicolas Charlet-B
  • R S Savkur
  • Maurice S Swanson
  • Christopher S Bland
  • J Paul Chapple
  • Debra L Kearney
  • N Muge Kuyumcu-Martinez
  • George Taffet
  • Donnie Bundman
  • Jin Han
  • Michael G Poulos
  • Rajesh S Savkur
  • Natalia Gromak
  • Nuno AndrĂ© Faustino
  • A V Philips
  • A N Ladd
  • Arvind Dev
  • Mariella De Biasi
  • Karen Anthony
  • Teresa Rodriguez Martin
  • Myrna G Stenberg
  • Michael A Mancini
  • Craig Hartley
  • J C Dalton
  • L P W Ranum
  • L R Coulter
  • M L Moseley
  • Kavin Malhotra
  • Nicole H Nguyen
  • Christopher W J Smith
  • Arianne J Matlin
  • Anne V Philips
  • Elizabeth A Grice
  • Penny Logan
  • N Charlet
  • J Ramchatesingh
  • M A Landree
  • A M Zahler
  • M B Roth

Detail Information

Publications32

  1. pmc A bichromatic fluorescent reporter for cell-based screens of alternative splicing
    James P Orengo
    Department of Pathology, Baylor College of Medicine, Houston, TX 77030, USA
    Nucleic Acids Res 34:e148. 2006
    ....
  2. pmc Identification of CELF splicing activation and repression domains in vivo
    Jin Han
    Department of Pathology, Baylor College of Medicine Houston, TX 77030, USA
    Nucleic Acids Res 33:2769-80. 2005
    ..These results provide a foundation for identifying CELF-interacting proteins involved in activated and/or repressed splicing...
  3. pmc RNA and disease
    Thomas A Cooper
    Department of Pathology, Baylor College of Medicine, Houston, TX 77030, USA
    Cell 136:777-93. 2009
    ..The discovery of disease-causing mutations in RNAs is yielding a wealth of new therapeutic targets, and the growing understanding of RNA biology and chemistry is providing new RNA-based tools for developing therapeutics...
  4. pmc Muscle-specific splicing of a heterologous exon mediated by a single muscle-specific splicing enhancer from the cardiac troponin T gene
    T A Cooper
    Departments of Pathology and Cell Biology, Baylor College of Medicine, Houston, Texas 77030, USA
    Mol Cell Biol 18:4519-25. 1998
    ..MSE2 and MSE4 each contain a novel sequence motif that is found adjacent to a number of alternative exons that undergo regulated splicing in striated muscle, suggesting a common role for this element in muscle-specific regulation...
  5. ncbi request reprint Highlights of alternative splicing regulation session: yes, no, maybe--a history of paradigm shifts
    T A Cooper
    Departments of Pathology and Molecular and Cellular Biology, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA
    Sci STKE 2001:pe35. 2001
    ..The importance of properly regulated splicing is emphasized by examples of disease pathologies in which alternative splicing is aberrant...
  6. pmc Finding signals that regulate alternative splicing in the post-genomic era
    Andrea N Ladd
    Department of Pathology, Baylor College of Medicine, Houston, TX 77030, USA
    Genome Biol 3:reviews0008. 2002
    ..Here, we discuss the regulatory elements that direct alternative splicing and how genome-wide analyses can aid in their identification...
  7. pmc The CELF family of RNA binding proteins is implicated in cell-specific and developmentally regulated alternative splicing
    A N Ladd
    Department of Pathology, Baylor College of Medicine, Houston, Texas 77030, USA
    Mol Cell Biol 21:1285-96. 2001
    ..We propose that ETR-3 is a major regulator of cTNT alternative splicing and that the CELF family plays an important regulatory role in cell-specific alternative splicing during normal development and disease...
  8. ncbi request reprint Aberrant regulation of insulin receptor alternative splicing is associated with insulin resistance in myotonic dystrophy
    R S Savkur
    Department of Pathology, Baylor College of Medicine, One Baylor Plaza, Houston, Texas, USA
    Nat Genet 29:40-7. 2001
    ..These results support a model in which increased expression of a splicing regulator contributes to insulin resistance in DM1 by affecting IR alternative splicing...
  9. pmc A subset of SR proteins activates splicing of the cardiac troponin T alternative exon by direct interactions with an exonic enhancer
    J Ramchatesingh
    Department of Pathology, Baylor College of Medicine, Houston, Texas 77030, USA
    Mol Cell Biol 15:4898-907. 1995
    ..Independent regulation of the levels of SR proteins may, therefore, contribute to the developmental regulation of exon inclusion...
  10. pmc Identification of a new class of exonic splicing enhancers by in vivo selection
    L R Coulter
    Department of Pathology, Baylor College of Medicine, Houston, Texas 77030, USA
    Mol Cell Biol 17:2143-50. 1997
    ..We suggest the possibility that the dsx enhancer is a member of a previously unrecognized family of ACEs...
  11. pmc Insulin receptor splicing alteration in myotonic dystrophy type 2
    R S Savkur
    Department of Pathology, Baylor University, Houston, TX, USA
    Am J Hum Genet 74:1309-13. 2004
    ..We now demonstrate that comparable splicing abnormalities occur in DM2 muscle prior to the development of muscle histopathology, thus demonstrating an early pathogenic effect of RNA expansions...
  12. ncbi request reprint Use of minigene systems to dissect alternative splicing elements
    Thomas A Cooper
    Department of Pathology, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA
    Methods 37:331-40. 2005
    ....
  13. pmc Antagonistic regulation of alpha-actinin alternative splicing by CELF proteins and polypyrimidine tract binding protein
    Natalia Gromak
    Department of Biochemistry, University of Cambridge, Cambridge CB2 1GA, UK
    RNA 9:443-56. 2003
    ....
  14. ncbi request reprint Minigene reporter for identification and analysis of cis elements and trans factors affecting pre-mRNA splicing
    Gopal Singh
    Baylor College of Medicine, Houston, TX, USA
    Biotechniques 41:177-81. 2006
    ....
  15. ncbi request reprint A reversal of misfortune for myotonic dystrophy?
    Thomas A Cooper
    Department of Pathology, Baylor College of Medicine, Houston, USA
    N Engl J Med 355:1825-7. 2006
  16. ncbi request reprint Misregulation of alternative splicing causes pathogenesis in myotonic dystrophy
    N Muge Kuyumcu-Martinez
    Department of Pathology, Baylor College of Medicine, Houston, TX 77030, USA
    Prog Mol Subcell Biol 44:133-59. 2006
    ..Here we review the proposed mechanisms for the toxic effects of the expanded repeats and discuss the molecular mechanisms of splicing misregulation and disease pathogenesis...
  17. ncbi request reprint Micromanaging alternative splicing during muscle differentiation
    Christopher S Bland
    Department of Pathology, Baylor College of Medicine, Houston, TX 77030, USA
    Dev Cell 12:171-2. 2007
    ..The results illustrate how two modes of posttranscriptional regulation combine to direct skeletal muscle development...
  18. ncbi request reprint Expression, localization and tau exon 10 splicing activity of the brain RNA-binding protein TNRC4
    J Paul Chapple
    MRC Centre for Neurodegeneration Research, Institute of Psychiatry, King s College London, De Crespigny Park, London SE5 8AF, UK
    Hum Mol Genet 16:2760-9. 2007
    ..This study represents the first characterization of TNRC4 and provides further insight into the mechanisms of brain-specific alternative splicing and their possible pathological implications...
  19. ncbi request reprint Splicing in disease: disruption of the splicing code and the decoding machinery
    Guey Shin Wang
    Department of Pathology, Baylor College of Medicine, Houston, Texas 77030, USA
    Nat Rev Genet 8:749-61. 2007
    ..An unexpectedly large fraction of exonic mutations exhibit a primary pathogenic effect on splicing. Furthermore, normal genetic variation significantly contributes to disease severity and susceptibility by affecting splicing efficiency...
  20. pmc Elevation of RNA-binding protein CUGBP1 is an early event in an inducible heart-specific mouse model of myotonic dystrophy
    Guey Shin Wang
    Department of Pathology, Baylor College of Medicine, Houston, Texas, USA
    J Clin Invest 117:2802-11. 2007
    ..These results indicate that CUGBP1 upregulation is an early and primary response to expression of CUG repeat RNA...
  21. ncbi request reprint Alternative splicing in disease
    James P Orengo
    Department of Pathology, Baylor College of Medicine, Houston, Texas, USA
    Adv Exp Med Biol 623:212-23. 2007
    ....
  22. ncbi request reprint Pre-mRNA splicing and human disease
    Nuno André Faustino
    Department of Pathology, Baylor College of Medicine, Houston, Texas 77030, USA
    Genes Dev 17:419-37. 2003
  23. pmc Cardiac tissue-specific repression of CELF activity disrupts alternative splicing and causes cardiomyopathy
    Andrea N Ladd
    Department of Pathology, Baylor College of Medicine, Houston, Texas 77030, USA
    Mol Cell Biol 25:6267-78. 2005
    ..We conclude that CELF protein activity is required for normal alternative splicing in the heart in vivo and that normal CELF-mediated alternative splicing regulation is in turn required for normal cardiac function...
  24. ncbi request reprint CELF6, a member of the CELF family of RNA-binding proteins, regulates muscle-specific splicing enhancer-dependent alternative splicing
    Andrea N Ladd
    Department of Pathology, Baylor College of Medicine, Houston, Texas 77030, USA
    J Biol Chem 279:17756-64. 2004
    ..These results place CELF6 in a functional subfamily of CELF proteins that includes CELFs 3, 4, and 5. CELF6 also promotes skipping of exon 11 of insulin receptor, a known target of CELF activity that is expressed in kidney...
  25. ncbi request reprint Multiple domains control the subcellular localization and activity of ETR-3, a regulator of nuclear and cytoplasmic RNA processing events
    Andrea N Ladd
    Department of Pathology, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA
    J Cell Sci 117:3519-29. 2004
    ..This is the first characterization of protein domains involved in mediating the subcellular localization and splicing activity of a member of the CELF family of RNA processing regulators...
  26. pmc Muscleblind proteins regulate alternative splicing
    Thai H Ho
    Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, TX 77030, USA
    EMBO J 23:3103-12. 2004
    ..The results are consistent with a mechanism for DM pathogenesis in which expanded repeats cause a loss of MBNL and/or gain of CELF activities, leading to misregulation of alternative splicing of specific pre-mRNA targets...
  27. ncbi request reprint Alternative splicing regulation impacts heart development
    Thomas A Cooper
    Department of Pathology, Baylor College of Medicine, Houston, TX 77030, USA
    Cell 120:1-2. 2005
    ..In this issue of Cell, Xu et al. (2005) demonstrate that a heart-specific knockout of one SR protein, ASF/SF2, produces cardiomyopathy and misregulation of specific alternative splicing events during early postnatal development...
  28. ncbi request reprint Loss of the muscle-specific chloride channel in type 1 myotonic dystrophy due to misregulated alternative splicing
    Nicolas Charlet-B
    Department of Pathology, Baylor College of Medicine, Houston, Texas 77030, USA
    Mol Cell 10:45-53. 2002
    ..We propose that disruption of alternative splicing regulation causes a predominant pathological feature of DM1...
  29. ncbi request reprint Transgenic mice expressing CUG-BP1 reproduce splicing mis-regulation observed in myotonic dystrophy
    Thai H Ho
    Department of Pathology, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA
    Hum Mol Genet 14:1539-47. 2005
    ..The results are consistent with a mechanism for DM pathogenesis in which expanded repeats result in increased CUG-BP1 activity and/or other CELF family members and have trans-dominant effects on specific pre-mRNA targets...
  30. ncbi request reprint Dynamic antagonism between ETR-3 and PTB regulates cell type-specific alternative splicing
    Nicolas Charlet-B
    Department of Pathology, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA
    Mol Cell 9:649-58. 2002
    ..We conclude that cell-specific regulation results from the dominance of one among actively competing regulatory states rather than modulation of a nonregulated default state...
  31. ncbi request reprint Colocalization of muscleblind with RNA foci is separable from mis-regulation of alternative splicing in myotonic dystrophy
    Thai H Ho
    Department of Molecular and Cellular Biology, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA
    J Cell Sci 118:2923-33. 2005
    ..We also find an immobile fraction of GFP-MBNL1 in DM1 fibroblasts and a similar rapid exchange in endogenous CUG RNA foci. Therefore, formation of RNA foci and disruption of MBNL1-regulated splicing are separable events...
  32. ncbi request reprint Dynamic balance between activation and repression regulates pre-mRNA alternative splicing during heart development
    Andrea N Ladd
    Department of Pathology, Baylor College of Medicine, Houston, Texas 77030, USA
    Dev Dyn 233:783-93. 2005
    ..ETR-3 and CUG-BP proteins are also down-regulated in other tissues during development, suggesting that CELF proteins play a broad role in developmental splicing regulation...