Douglas Black

Summary

Affiliation: University of California
Country: USA

Publications

  1. pmc Roles for SR proteins and hnRNP A1 in the regulation of c-src exon N1
    Nanette Rooke
    Department of Microbiology, Immunology and Molecular Genetics, University of California Los Angeles, 1602 Molecular Sciences Building, 405 Hilgard Avenue, Los Angeles, CA 90095, USA
    Mol Cell Biol 23:1874-84. 2003
  2. pmc To cross or not to cross: alternatively spliced forms of the Robo3 receptor regulate discrete steps in axonal midline crossing
    Douglas L Black
    Department of Microbiology, Immunology and Molecular Genetics, Howard Hughes Medical Institute, David Geffen School of Medicine, MacDonald Research Laboratories, 675 Charles E Young Drive South, Los Angeles, CA 90095, USA
    Neuron 58:297-8. 2008
  3. pmc Splicing bioinformatics to biology
    Douglas L Black
    Department of Microbiology, Immunology and Molecular Genetics, Howard Hughes Medical Institute, University of California, Los Angeles, CA 90095 1662, USA
    Genome Biol 7:317. 2006
  4. pmc A simple answer for a splicing conundrum
    Douglas L Black
    Howard Hughes Medical Institute, University of California, Los Angeles, CA 90095 1662, USA
    Proc Natl Acad Sci U S A 102:4927-8. 2005
  5. ncbi request reprint Mechanisms of alternative pre-messenger RNA splicing
    Douglas L Black
    Department of Microbiology, Immunology, and Molecular Genetics, Howard Hughes Medical Institute, University of California Los Angeles, Los Angeles, California 90095 1662, USA
    Annu Rev Biochem 72:291-336. 2003
  6. ncbi request reprint Maps, codes, and sequence elements: can we predict the protein output from an alternatively spliced locus?
    Shalini Sharma
    Department of Microbiology, Immunology, and Molecular Genetics, Howard Hughes Medical Institute, University of California, Los Angeles, Los Angeles, California 90095, USA
    Neuron 52:574-6. 2006
  7. pmc Depolarization and CaM kinase IV modulate NMDA receptor splicing through two essential RNA elements
    Ji Ann Lee
    Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, Los Angeles, California, United States of America
    PLoS Biol 5:e40. 2007
  8. pmc Polypyrimidine tract binding protein controls the transition from exon definition to an intron defined spliceosome
    Shalini Sharma
    Howard Hughes Medical Institute, University of California, Los Angeles, MRL5 748, Charles E Young Drive South, Los Angeles, California 90095, USA
    Nat Struct Mol Biol 15:183-91. 2008
  9. pmc Exon repression by polypyrimidine tract binding protein
    Batoul Amir-Ahmady
    Department of Microbiology, Immunology and Molecular Genetics, University of California Los Angeles, Los Angeles, CA 90095 1662, USA
    RNA 11:699-716. 2005
  10. pmc Co-transcriptional splicing of constitutive and alternative exons
    Amy Pandya-Jones
    Department of Microbiology, Immunology and Molecular Genetics, University of California at Los Angeles, Los Angeles, California 90095, USA
    RNA 15:1896-908. 2009

Research Grants

  1. Genomic Measurement of Alternative Splicing by DNA Array
    Douglas Black; Fiscal Year: 2007
  2. The Regulation of Neuronal Exon Splicing
    Douglas L Black; Fiscal Year: 2010
  3. The Regulation of Neuronal Exon Splicing
    Douglas Black; Fiscal Year: 2009
  4. REGULATION OF C-SRC PREMRNA SPLICING
    Douglas Black; Fiscal Year: 2006
  5. The Regulation of Neuronal Exon Splicing
    Douglas Black; Fiscal Year: 2007
  6. REGULATION OF C-SRC PREMRNA SPLICING
    Douglas Black; Fiscal Year: 2001
  7. The Regulation of Neuronal Exon Splicing
    Douglas Black; Fiscal Year: 2009

Collaborators

  • BRENTON GRAVELEY
  • Jiuyong Xie
  • Manuel Ares
  • S Zipursky
  • Yi Xing
  • Shalini Sharma
  • Paul L Boutz
  • Ji Ann Lee
  • Peter Stoilov
  • Geetanjali Chawla
  • Andrey Damianov
  • Zhen Zhi Tang
  • Chia Ho Lin
  • Qin Li
  • Sigrid D Auweter
  • Jason G Underwood
  • Batoul Amir-Ahmady
  • Amy Pandya-Jones
  • Julia Nikolic
  • Lily Shiue
  • Luc Reymond
  • Frédéric H T Allain
  • Stefan Pitsch
  • Florian C Oberstrass
  • Megan P Hall
  • Vadim Markovtsov
  • Nanette Rooke
  • Areum Han
  • Sika Zheng
  • Donald C Rio
  • Lori A Kohlstaedt
  • Robert Damoiseaux
  • Christopher J Lee
  • Kristin Ostrow
  • David Nguyen
  • Rudi Fasan
  • Michèle Erat
  • Anke Henning
  • Arnold M Falick
  • Yann Hargous
  • Joseph D Dougherty
  • Martin L Phillips
  • Philipp Wenter
  • Sui Huang
  • Esra Cagavi

Detail Information

Publications26

  1. pmc Roles for SR proteins and hnRNP A1 in the regulation of c-src exon N1
    Nanette Rooke
    Department of Microbiology, Immunology and Molecular Genetics, University of California Los Angeles, 1602 Molecular Sciences Building, 405 Hilgard Avenue, Los Angeles, CA 90095, USA
    Mol Cell Biol 23:1874-84. 2003
    ..Our results link the activity of these well-known exonic splicing regulators, SF2/ASF and hnRNP A1, to the splicing of an exon primarily controlled by intronic factors...
  2. pmc To cross or not to cross: alternatively spliced forms of the Robo3 receptor regulate discrete steps in axonal midline crossing
    Douglas L Black
    Department of Microbiology, Immunology and Molecular Genetics, Howard Hughes Medical Institute, David Geffen School of Medicine, MacDonald Research Laboratories, 675 Charles E Young Drive South, Los Angeles, CA 90095, USA
    Neuron 58:297-8. 2008
    ....
  3. pmc Splicing bioinformatics to biology
    Douglas L Black
    Department of Microbiology, Immunology and Molecular Genetics, Howard Hughes Medical Institute, University of California, Los Angeles, CA 90095 1662, USA
    Genome Biol 7:317. 2006
  4. pmc A simple answer for a splicing conundrum
    Douglas L Black
    Howard Hughes Medical Institute, University of California, Los Angeles, CA 90095 1662, USA
    Proc Natl Acad Sci U S A 102:4927-8. 2005
  5. ncbi request reprint Mechanisms of alternative pre-messenger RNA splicing
    Douglas L Black
    Department of Microbiology, Immunology, and Molecular Genetics, Howard Hughes Medical Institute, University of California Los Angeles, Los Angeles, California 90095 1662, USA
    Annu Rev Biochem 72:291-336. 2003
    ..How these regulators are combined into complex systems of tissue-specific splicing is discussed. In conclusion, very recent studies are presented that point to new directions for understanding alternative splicing and its mechanisms...
  6. ncbi request reprint Maps, codes, and sequence elements: can we predict the protein output from an alternatively spliced locus?
    Shalini Sharma
    Department of Microbiology, Immunology, and Molecular Genetics, Howard Hughes Medical Institute, University of California, Los Angeles, Los Angeles, California 90095, USA
    Neuron 52:574-6. 2006
    ..A recent study describes how for a particular neuronal splicing regulatory protein, Nova, the location of its binding sites is highly predictive of the protein's effect on an exon's splicing...
  7. pmc Depolarization and CaM kinase IV modulate NMDA receptor splicing through two essential RNA elements
    Ji Ann Lee
    Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, Los Angeles, California, United States of America
    PLoS Biol 5:e40. 2007
    ..Many of these exons are likely to alter neuronal function. Thus, these two RNA elements define a group of co-regulated splicing events that respond to a common stimulus in neurons to alter their activity...
  8. pmc Polypyrimidine tract binding protein controls the transition from exon definition to an intron defined spliceosome
    Shalini Sharma
    Howard Hughes Medical Institute, University of California, Los Angeles, MRL5 748, Charles E Young Drive South, Los Angeles, California 90095, USA
    Nat Struct Mol Biol 15:183-91. 2008
    ..Proteomic analyses of these complexes provide a new description of exon definition complexes, and indicate that splicing regulators can act on the transition between the exon definition complex and an intron-defined spliceosome...
  9. pmc Exon repression by polypyrimidine tract binding protein
    Batoul Amir-Ahmady
    Department of Microbiology, Immunology and Molecular Genetics, University of California Los Angeles, Los Angeles, CA 90095 1662, USA
    RNA 11:699-716. 2005
    ..The minimal complex mediating splicing repression by PTB requires two binding sites bound by an oligomeric PTB complex...
  10. pmc Co-transcriptional splicing of constitutive and alternative exons
    Amy Pandya-Jones
    Department of Microbiology, Immunology and Molecular Genetics, University of California at Los Angeles, Los Angeles, California 90095, USA
    RNA 15:1896-908. 2009
    ..Thus, we demonstrate that the decision to include or skip an alternative exon is made during transcription and not post-transcriptionally...
  11. pmc Homologues of the Caenorhabditis elegans Fox-1 protein are neuronal splicing regulators in mammals
    Jason G Underwood
    Molecular Biology Institute, University of California, Los Angeles, Los Angeles, California 90095 1662, USA
    Mol Cell Biol 25:10005-16. 2005
    ..They do this through a splicing enhancer function, in addition to their apparent negative effects on splicing in vertebrate muscle and in worms...
  12. pmc Sam68 regulates a set of alternatively spliced exons during neurogenesis
    Geetanjali Chawla
    Howard Hughes Medical Institute, University of California, Los Angeles, 6 762 MacDonald Research Laboratories, 675 Charles E Young Drive South, Los Angeles, California 90095 1662, USA
    Mol Cell Biol 29:201-13. 2009
    ..Thus, Sam68 controls neurogenesis through its effects on a specific set of RNA targets...
  13. pmc A post-transcriptional regulatory switch in polypyrimidine tract-binding proteins reprograms alternative splicing in developing neurons
    Paul L Boutz
    Department of Microbiology, Immunology, and Molecular Genetics, 6 762 MacDonald Research Laboratories, Los Angeles, CA 90095, USA
    Genes Dev 21:1636-52. 2007
    ..These data show that the post-transcriptional switch from PTB to nPTB controls a widespread alternative splicing program during neuronal development...
  14. pmc A consensus CaMK IV-responsive RNA sequence mediates regulation of alternative exons in neurons
    Jiuyong Xie
    Department of Microbiology, Immunology and Molecular Genetics, University of California Los Angeles, Los Angeles, CA 90095 1662, USA
    RNA 11:1825-34. 2005
    ..The functions of some of these exons imply that splicing control through the CaMK IV pathway will alter neuronal activity...
  15. pmc Polypyrimidine tract binding protein blocks the 5' splice site-dependent assembly of U2AF and the prespliceosomal E complex
    Shalini Sharma
    Howard Hughes Medical Institute, University of California, Los Angeles, MRL5 748, Charles E Young Drive South, Los Angeles, California 90095, USA
    Mol Cell 19:485-96. 2005
    ..Thus, rather than directly blocking the N1 splice sites, PTB prevents the 5' splice site-dependent assembly of U2AF into the E complex. This mechanism likely occurs in many other alternative exons...
  16. pmc Differentiation-induced colocalization of the KH-type splicing regulatory protein with polypyrimidine tract binding protein and the c-src pre-mRNA
    Megan P Hall
    Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, Los Angeles, California 90095, USA
    Mol Biol Cell 15:774-86. 2004
    ..These results indicate that PTB and KSRP do indeed interact with the c-src transcript in vivo, and that these associations change with the differentiated state of the cell...
  17. pmc An inducible change in Fox-1/A2BP1 splicing modulates the alternative splicing of downstream neuronal target exons
    Ji Ann Lee
    Department of Microbiology, Immunology, and Molecular Genetics, University of California at Los Angeles, Los Angeles, California 90095, USA
    Genes Dev 23:2284-93. 2009
    ..These results reveal a novel mechanism for the slow modulation of splicing as cells adapt to chronic stimuli: The subcellular localization of a splicing regulator is controlled through its own alternative splicing...
  18. pmc Developmental control of CaV1.2 L-type calcium channel splicing by Fox proteins
    Zhen Zhi Tang
    Howard Hughes Medical Institute, University of California at Los Angeles, Los Angeles, California 90095 1662, USA
    Mol Cell Biol 29:4757-65. 2009
    ..These results demonstrate that the Fox protein family is playing a key role in tuning the properties of CaV1.2 calcium channels during neuronal development...
  19. pmc A high-throughput screening strategy identifies cardiotonic steroids as alternative splicing modulators
    Peter Stoilov
    Department of Microbiology, Immunology, and Molecular Genetics and Howard Hughes Medical Institute, University of California, Los Angeles, CA 90095 1662, USA
    Proc Natl Acad Sci U S A 105:11218-23. 2008
    ..Our results identify currently prescribed cardiotonic steroids as modulators of alternative splicing and demonstrate the feasibility of screening for drugs that alter exon inclusion...
  20. ncbi request reprint Neuronal regulation of alternative pre-mRNA splicing
    Qin Li
    Howard Hughes Medical Institute, University of California, Los Angeles, 6 762 MacDonald Research Laboratories, 675 Charles E Young Drive South, Los Angeles, California 90095, USA
    Nat Rev Neurosci 8:819-31. 2007
    ..Finally, we describe regulatory proteins that control the splicing of some neuronally expressed transcripts...
  21. pmc MicroRNAs regulate the expression of the alternative splicing factor nPTB during muscle development
    Paul L Boutz
    Department of Microbiology, Immunology, and Molecular Genetics, University of California at Los Angeles, Los Angeles, California 90095, USA
    Genes Dev 21:71-84. 2007
    ..These results indicate that miR-133 directly down-regulates a key splicing factor during muscle development and establishes a role for microRNAs in the control of a developmentally dynamic splicing program...
  22. pmc Autoregulation of Fox protein expression to produce dominant negative splicing factors
    Andrey Damianov
    Howard Hughes Medical Institute, University of California at Los Angeles, Los Angeles, California 90095, USA
    RNA 16:405-16. 2010
    ..Thus, rather than autoregulation of splicing controlling the abundance of the regulator, the Fox proteins use a highly conserved mechanism of splicing autoregulation to control production of a dominant negative isoform...
  23. pmc Protein kinase A phosphorylation modulates transport of the polypyrimidine tract-binding protein
    Jiuyong Xie
    Howard Hughes Medical Institute, Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, CA 90095 1662, USA
    Proc Natl Acad Sci U S A 100:8776-81. 2003
    ..Thus, direct PKA phosphorylation of PTB at Ser-16 modulates the nucleo-cytoplasmic distribution of PTB. This phosphorylation likely plays a role in the cytoplasmic function of PTB...
  24. ncbi request reprint Structure of PTB bound to RNA: specific binding and implications for splicing regulation
    Florian C Oberstrass
    Institute for Molecular Biology and Biophysics, Department of Biology, Swiss Federal Institute of Technology, Zurich, ETH Honggerberg, CH 8093 Zurich, Switzerland
    Science 309:2054-7. 2005
    ..Thus, PTB will induce RNA looping when bound to two separated pyrimidine tracts within the same RNA. This leads to structural models for how PTB functions as an alternative-splicing repressor...
  25. pmc MADS: a new and improved method for analysis of differential alternative splicing by exon-tiling microarrays
    Yi Xing
    Department of Internal Medicine, University of Iowa, Iowa City, Iowa 52242, USA
    RNA 14:1470-9. 2008
    ..Thirty novel events were tested by RT-PCR and 27 were confirmed. This work demonstrates that the exon-tiling microarray design is an efficient and powerful approach for global, unbiased analysis of pre-mRNA splicing...
  26. pmc Molecular basis of RNA recognition by the human alternative splicing factor Fox-1
    Sigrid D Auweter
    Institute for Molecular Biology and Biophysics, Swiss Federal Institute of Technology ETH Zurich, Zurich, Switzerland
    EMBO J 25:163-73. 2006
    ..These results demonstrate the unusual molecular mechanism of sequence-specific RNA recognition by Fox-1, which is exceptional in its high affinity for a defined but short sequence element...

Research Grants16

  1. Genomic Measurement of Alternative Splicing by DNA Array
    Douglas Black; Fiscal Year: 2007
    ..abstract_text> ..
  2. The Regulation of Neuronal Exon Splicing
    Douglas L Black; Fiscal Year: 2010
    ..For these diseases to be approached therapeutically, much more information is needed on the mechanisms of splicing regulation and its role in neuronal function. ..
  3. The Regulation of Neuronal Exon Splicing
    Douglas Black; Fiscal Year: 2009
    ..For these diseases to be approached therapeutically, much more information is needed on the mechanisms of splicing regulation and its role in neuronal function. ..
  4. REGULATION OF C-SRC PREMRNA SPLICING
    Douglas Black; Fiscal Year: 2006
    ..From this work we hope to understand in precise molecular detail how a variety of combinatorial inputs can determine a change in splicing. ..
  5. The Regulation of Neuronal Exon Splicing
    Douglas Black; Fiscal Year: 2007
    ..For these diseases to be approached therapeutically, much more information is needed on the mechanisms of splicing regulation and its role in neuronal function. ..
  6. REGULATION OF C-SRC PREMRNA SPLICING
    Douglas Black; Fiscal Year: 2001
    ..Finally, simplified splicing systems will be developed for the analysis of individual regulatory proteins. Our goal is to understand in molecular detail how a simple change in splicing pattern is regulated in differentiated cells. ..
  7. The Regulation of Neuronal Exon Splicing
    Douglas Black; Fiscal Year: 2009
    ..For these diseases to be approached therapeutically, much more information is needed on the mechanisms of splicing regulation and its role in neuronal function. ..