rna binding proteins

Summary

Summary: Proteins that bind to RNA molecules. Included here are RIBONUCLEOPROTEINS and other proteins whose function is to bind specifically to RNA.

Top Publications

  1. ncbi Induced pluripotent stem cell lines derived from human somatic cells
    Junying Yu
    Genome Center of Wisconsin, Madison, WI 53706 1580, USA
    Science 318:1917-20. 2007
  2. pmc Alternative isoform regulation in human tissue transcriptomes
    Eric T Wang
    Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    Nature 456:470-6. 2008
  3. ncbi Messenger-RNA-binding proteins and the messages they carry
    Gideon Dreyfuss
    Howard Hughes Medical Institute and Department of Biochemistry and Biophysics, University of Pennsylvania School of Medicine, Philadelphia, Pennsylvania 19104 6148, USA
    Nat Rev Mol Cell Biol 3:195-205. 2002
  4. pmc Lin28 promotes transformation and is associated with advanced human malignancies
    Srinivas R Viswanathan
    Children s Hospital Boston, Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Harvard Stem Cell Institute, Boston, MA, USA
    Nat Genet 41:843-8. 2009
  5. ncbi Myotonic dystrophy type 2 caused by a CCTG expansion in intron 1 of ZNF9
    C L Liquori
    Institute of Human Genetics MMC 206, 420 Delaware Street SE, University of Minnesota, Minneapolis, MN 55455, USA
    Science 293:864-7. 2001
  6. ncbi RNA-binding protein Dnd1 inhibits microRNA access to target mRNA
    Martijn Kedde
    The Netherlands Cancer Institute, Division of Tumor Biology, Plesmanlaan 121, 1066CX, Amsterdam, The Netherlands
    Cell 131:1273-86. 2007
  7. pmc Decapping and decay of messenger RNA occur in cytoplasmic processing bodies
    Ujwal Sheth
    Department of Molecular and Cellular Biology and Howard Hughes Medical Institute, University of Arizona, Tucson, AZ 85721, USA
    Science 300:805-8. 2003
  8. ncbi Human mRNA export machinery recruited to the 5' end of mRNA
    Hong Cheng
    Department of Cell Biology, Harvard Medical School, Boston, MA 02115, USA
    Cell 127:1389-400. 2006
  9. ncbi HuR and mRNA stability
    C M Brennan
    Department of Molecular Biophysics and Biochemistry, Howard Hughes Medical Institute, Yale University School of Medicine, New Haven, Connecticut 06536, USA
    Cell Mol Life Sci 58:266-77. 2001
  10. ncbi RNA-binding proteins: modular design for efficient function
    Bradley M Lunde
    Department of Biochemistry, University of Washington, Seattle, Washington 98195, USA
    Nat Rev Mol Cell Biol 8:479-90. 2007

Detail Information

Publications411 found, 100 shown here

  1. ncbi Induced pluripotent stem cell lines derived from human somatic cells
    Junying Yu
    Genome Center of Wisconsin, Madison, WI 53706 1580, USA
    Science 318:1917-20. 2007
    ....
  2. pmc Alternative isoform regulation in human tissue transcriptomes
    Eric T Wang
    Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    Nature 456:470-6. 2008
    ....
  3. ncbi Messenger-RNA-binding proteins and the messages they carry
    Gideon Dreyfuss
    Howard Hughes Medical Institute and Department of Biochemistry and Biophysics, University of Pennsylvania School of Medicine, Philadelphia, Pennsylvania 19104 6148, USA
    Nat Rev Mol Cell Biol 3:195-205. 2002
    ..These proteins communicate crucial information to the translation machinery for the surveillance of nonsense mutations and for mRNA localization and translation...
  4. pmc Lin28 promotes transformation and is associated with advanced human malignancies
    Srinivas R Viswanathan
    Children s Hospital Boston, Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Harvard Stem Cell Institute, Boston, MA, USA
    Nat Genet 41:843-8. 2009
    ..Our work provides a mechanism for the coordinate repression of let-7 miRNAs observed in a subset of human cancers, and associates activation of LIN28 and LIN28B with poor clinical prognosis...
  5. ncbi Myotonic dystrophy type 2 caused by a CCTG expansion in intron 1 of ZNF9
    C L Liquori
    Institute of Human Genetics MMC 206, 420 Delaware Street SE, University of Minnesota, Minneapolis, MN 55455, USA
    Science 293:864-7. 2001
    ..Parallels between these mutations indicate that microsatellite expansions in RNA can be pathogenic and cause the multisystemic features of DM1 and DM2...
  6. ncbi RNA-binding protein Dnd1 inhibits microRNA access to target mRNA
    Martijn Kedde
    The Netherlands Cancer Institute, Division of Tumor Biology, Plesmanlaan 121, 1066CX, Amsterdam, The Netherlands
    Cell 131:1273-86. 2007
    ..These effects of Dnd1 are mediated through uridine-rich regions present in the miRNA-targeted mRNAs. Thus, our data unravel a novel role of Dnd1 in protecting certain mRNAs from miRNA-mediated repression...
  7. pmc Decapping and decay of messenger RNA occur in cytoplasmic processing bodies
    Ujwal Sheth
    Department of Molecular and Cellular Biology and Howard Hughes Medical Institute, University of Arizona, Tucson, AZ 85721, USA
    Science 300:805-8. 2003
    ..These results define the flux of mRNAs between polysomes and P bodies as a critical aspect of cytoplasmic mRNA metabolism and a possible site for regulation of mRNA degradation...
  8. ncbi Human mRNA export machinery recruited to the 5' end of mRNA
    Hong Cheng
    Department of Cell Biology, Harvard Medical School, Boston, MA 02115, USA
    Cell 127:1389-400. 2006
    ..As a consequence, the mRNA would be exported in a 5' to 3' direction through the nuclear pore, as observed in early electron micrographs of giant Balbiani ring mRNPs...
  9. ncbi HuR and mRNA stability
    C M Brennan
    Department of Molecular Biophysics and Biochemistry, Howard Hughes Medical Institute, Yale University School of Medicine, New Haven, Connecticut 06536, USA
    Cell Mol Life Sci 58:266-77. 2001
    ..The influence of newly identified protein ligands to HuR on HuR function in both normal and stressed cells may explain how ARE-mediated mRNA decay is regulated in response to environmental change...
  10. ncbi RNA-binding proteins: modular design for efficient function
    Bradley M Lunde
    Department of Biochemistry, University of Washington, Seattle, Washington 98195, USA
    Nat Rev Mol Cell Biol 8:479-90. 2007
    ..These studies have shown how, for many RNA-binding proteins, multiple modules define the fundamental structural unit that is responsible for biological function...
  11. ncbi Identification of a gene (FMR-1) containing a CGG repeat coincident with a breakpoint cluster region exhibiting length variation in fragile X syndrome
    A J Verkerk
    Department of Clinical Genetics, Erasmus University Rotterdam, The Netherlands
    Cell 65:905-14. 1991
    ..Localization of the brain-expressed FMR-1 gene to this EcoRI fragment suggests the involvement of this gene in the phenotypic expression of the fragile X syndrome...
  12. ncbi Perspective: machines for RNAi
    Yukihide Tomari
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, Massachusetts 01605, USA
    Genes Dev 19:517-29. 2005
    ..Here, we review our current understanding of how small RNAs are produced, how they are loaded into protein complexes, and how they repress gene expression...
  13. ncbi Switching from repression to activation: microRNAs can up-regulate translation
    Shobha Vasudevan
    Department of Molecular Biophysics and Biochemistry, Howard Hughes Medical Institute, Yale University School of Medicine, Boyer Center for Molecular Medicine, 295 Congress Avenue, New Haven, CT 06536, USA
    Science 318:1931-4. 2007
    ..Thus, activation is a common function of microRNPs on cell cycle arrest. We propose that translation regulation by microRNPs oscillates between repression and activation during the cell cycle...
  14. ncbi R2D2, a bridge between the initiation and effector steps of the Drosophila RNAi pathway
    Qinghua Liu
    Howard Hughes Medical Institute and Department of Biochemistry, University of Texas Southwestern Medical Center at Dallas, Dallas, TX 75390, USA
    Science 301:1921-5. 2003
    ..These results indicate that R2D2 bridges the initiation and effector steps of the Drosophila RNAi pathway by facilitating siRNA passage from Dicer to RISC...
  15. pmc HITS-CLIP yields genome-wide insights into brain alternative RNA processing
    Donny D Licatalosi
    Laboratory of Molecular Neuro Oncology and Howard Hughes Medical Institute, The Rockefeller University, 1230 York Avenue, New York, New York 10021, USA
    Nature 456:464-9. 2008
    ..HITS-CLIP, therefore, provides a robust, unbiased means to identify functional protein-RNA interactions in vivo...
  16. pmc TRBP, a regulator of cellular PKR and HIV-1 virus expression, interacts with Dicer and functions in RNA silencing
    Astrid D Haase
    Friedrich Miescher Institute for Biomedical Research, Maulbeerstrasse 66, 4508 Basel, Switzerland
    EMBO Rep 6:961-7. 2005
    ..The TRBP-Dicer interaction shown raises interesting questions about the potential interplay between RNAi and interferon-PKR pathways...
  17. ncbi TREX is a conserved complex coupling transcription with messenger RNA export
    Katja Strasser
    BZH, University of Heidelberg, Im Neuenheimer Feld 328, D 69120 Heidelberg, Germany
    Nature 417:304-8. 2002
    ..Our data indicate that the TREX complex has a conserved role in coupling transcription to mRNA export...
  18. ncbi Processing of primary microRNAs by the Microprocessor complex
    Ahmet M Denli
    Cold Spring Harbor Laboratory, Watson School of Biological Sciences, 1 Bungtown Road, Cold Spring Harbor, New York 11724, USA
    Nature 432:231-5. 2004
    ..Considered together, these results indicate a role for Pasha in miRNA maturation and miRNA-mediated gene regulation...
  19. ncbi CLIP identifies Nova-regulated RNA networks in the brain
    Jernej Ule
    Howard Hughes Medical Institute, Rockefeller University, New York, NY 10021, USA
    Science 302:1212-5. 2003
    ..Thus, CLIP reveals that Nova coordinately regulates a biologically coherent set of RNAs encoding multiple components of the inhibitory synapse, an observation that may relate to the cause of abnormal motor inhibition in POMA...
  20. ncbi Termination of cryptic unstable transcripts is directed by yeast RNA-binding proteins Nrd1 and Nab3
    John T Arigo
    Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, 725 North Wolfe Street, Baltimore, Maryland 21205, USA
    Mol Cell 23:841-51. 2006
    ..These cryptic unstable transcripts (CUTs) are rapidly degraded by the nuclear exosome. Yeast RNA binding proteins Nrd1 and Nab3 direct termination of sn/snoRNAs and recently have also been implicated in premature ..
  21. ncbi The influenza virus nucleoprotein: a multifunctional RNA-binding protein pivotal to virus replication
    Agustín Portela
    División de Productos Biológicos y Biotecnología, Agencia Española del Medicamento, Majadahonda 28220, Madrid, Spain
    J Gen Virol 83:723-34. 2002
    ..The evidence for the existence of each of these activities and their possible roles in transcription, replication and intracellular trafficking of the virus genome is considered...
  22. ncbi Regulation of Fas alternative splicing by antagonistic effects of TIA-1 and PTB on exon definition
    Jose Maria Izquierdo
    Centre de Regulacio Genomica, Passeig Maritim 37 49, 08003 Barcelona, Spain
    Mol Cell 19:475-84. 2005
    ..We propose that TIA-1 and PTB regulate Fas splicing and possibly Fas-mediated apoptosis by targeting molecular events that lead to exon definition...
  23. 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...
  24. ncbi Spatial regulation of beta-actin translation by Src-dependent phosphorylation of ZBP1
    Stefan Huttelmaier
    Department of Anatomy and Structural Biology, Albert Einstein College of Medicine, 1300 Morris Park Avenue, Bronx, New York 10461, USA
    Nature 438:512-5. 2005
    ..These sequential events provide both temporal and spatial control over beta-actin mRNA translation, which is important for cell migration and neurite outgrowth...
  25. ncbi The nuclear dsRNA binding protein HYL1 is required for microRNA accumulation and plant development, but not posttranscriptional transgene silencing
    Franck Vazquez
    Laboratoire de Biologie Cellulaire, Institut Jean Pierre Bourgin, INRA, 78026 Versailles Cedex, France
    Curr Biol 14:346-51. 2004
    ..elegans and Drosophila, respectively...
  26. doi Rapid and systematic analysis of the RNA recognition specificities of RNA-binding proteins
    Debashish Ray
    Banting and Best Department of Medical Research, University of Toronto, Toronto, Ontario, Canada
    Nat Biotechnol 27:667-70. 2009
    ..We anticipate that RNAcompete will be a valuable tool for the study of RNA-protein interactions...
  27. ncbi RNA-binding protein Nrd1 directs poly(A)-independent 3'-end formation of RNA polymerase II transcripts
    E J Steinmetz
    Department of Biomolecular Chemistry, University of Wisconsin Medical School, Madison, Wisconsin 53706 1532, USA
    Nature 413:327-31. 2001
    ..The same proteins are required for maintaining normal levels of Nrd1 mRNA, indicating that these proteins may control elongation of a subset of mRNA transcripts...
  28. doi Stress granules: the Tao of RNA triage
    Paul Anderson
    Division of Rheumatology, Immunology and Allergy, Brigham and Women s Hospital and Harvard Medical School, One Jimmy Fund Way, Boston, MA 02115, USA
    Trends Biochem Sci 33:141-50. 2008
    ..Thus, these ephemeral bodies represent more than just the dynamic sorting of mRNA between translation and decay...
  29. ncbi A PUF family portrait: 3'UTR regulation as a way of life
    Marvin Wickens
    Dept of Biochemistry, University of Wisconsin, Madison, WI 53706, USA
    Trends Genet 18:150-7. 2002
    ..Here, we discuss the evolution, biological function and mechanisms of action of the PUF protein family, and suggest that a primordial function of PUF proteins is to sustain mitotic proliferation of stem cells...
  30. ncbi SMNDelta7, the major product of the centromeric survival motor neuron (SMN2) gene, extends survival in mice with spinal muscular atrophy and associates with full-length SMN
    Thanh T Le
    Department of Molecular and Cellular Biochemistry, College of Medicine and Public Health, Ohio State University, Columbus, OH 43210, USA
    Hum Mol Genet 14:845-57. 2005
    ..The increased survival of the SMNDelta7 SMA mice we report will facilitate testing of therapies and indicates the importance of considering co-complexes of SMN and SMNDelta7 when analyzing SMN function...
  31. ncbi Nova regulates brain-specific splicing to shape the synapse
    Jernej Ule
    Howard Hughes Medical Institute and Laboratory of Molecular Neuro Oncology, The Rockefeller University, New York, New York, USA
    Nat Genet 37:844-52. 2005
    ..Validating a large set of Nova RNA targets has led us to identify a multi-tiered network in which Nova regulates the exon content of RNAs encoding proteins that interact in the synapse...
  32. ncbi The mechanism by which influenza A virus nucleoprotein forms oligomers and binds RNA
    Qiaozhen Ye
    Department of Biochemistry and Cell Biology, Rice University, 6100 Main Street, MS140, Houston, Texas 77005, USA
    Nature 444:1078-82. 2006
    ..Our results identify the tail loop binding pocket as a potential target for antiviral development...
  33. ncbi Nrd1 interacts with the nuclear exosome for 3' processing of RNA polymerase II transcripts
    Lidia Vasiljeva
    Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, 240 Longwood Avenue, Boston, Massachusetts 02115, USA
    Mol Cell 21:239-48. 2006
    ..Since Nrd1 is known to bind RNA polymerase II and be important for sn/snoRNA 3' end processing, Nrd1 may link transcription and RNA 3' end formation with surveillance by the exosome...
  34. pmc Raf kinase inhibitory protein suppresses a metastasis signalling cascade involving LIN28 and let-7
    Surabhi Dangi-Garimella
    Ben May Department for Cancer Research, Gordon Center for Integrative Sciences, University of Chicago, IL 60637, USA
    EMBO J 28:347-58. 2009
    ..RKIP regulation of two pluripotent stem cell genes, Myc and LIN28, highlights the importance of RKIP as a key metastasis suppressor and potential therapeutic agent...
  35. pmc A family of insulin-like growth factor II mRNA-binding proteins represses translation in late development
    J Nielsen
    RNA Regulation Centre, Institute of Molecular Biology, University of Copenhagen, Copenhagen, Denmark
    Mol Cell Biol 19:1262-70. 1999
    ..The results imply that cytoplasmic 5' UTR-binding proteins control IGF-II biosynthesis during late mammalian development...
  36. pmc Increased steady-state levels of CUGBP1 in myotonic dystrophy 1 are due to PKC-mediated hyperphosphorylation
    N Muge Kuyumcu-Martinez
    Department of Pathology, Baylor College of Medicine, Houston, TX 77030, USA
    Mol Cell 28:68-78. 2007
    ..These results indicate that inappropriate activation of the PKC pathway contributes to the pathogenic effects of a noncoding RNA...
  37. ncbi Trapping of messenger RNA by Fragile X Mental Retardation protein into cytoplasmic granules induces translation repression
    Rachid Mazroui
    Unite de Recherche en Genetique Humaine et Moleculaire, Centre de recherche Hôpital Saint François d Assise, 10 rue de l Espinay, Quebec G1L 3L5, PQ, Canada
    Hum Mol Genet 11:3007-17. 2002
    ..We speculate that, in neurons, FMRP plays a role as a mRNA repressor in incompetent mRNP granules that have to be translocated from the cell body to distal locations such as dendritic spines and synaptosomes...
  38. ncbi Transcription termination and nuclear degradation of cryptic unstable transcripts: a role for the nrd1-nab3 pathway in genome surveillance
    Marilyne Thiebaut
    Centre de Genetique Moleculaire, Centre National de la Recherche Scientifique, 91190 Gif sur Yvette, France
    Mol Cell 23:853-64. 2006
    ..Our results suggest an important role for the Nrd1p-Nab3p pathway in the control of gene expression throughout the genome...
  39. ncbi PSF and p54(nrb)/NonO--multi-functional nuclear proteins
    Yaron Shav-Tal
    Department of Molecular Cell Biology, The Weizmann Institute of Science, Rehovot, Israel
    FEBS Lett 531:109-14. 2002
    ....
  40. pmc A postnatal switch of CELF and MBNL proteins reprograms alternative splicing in the developing heart
    Auinash Kalsotra
    Department of Pathology, Baylor College of Medicine, Houston, TX 77030, USA
    Proc Natl Acad Sci U S A 105:20333-8. 2008
    ..These findings indicate that CELF and MBNL proteins are determinative for a large subset of splicing transitions that occur during postnatal heart development...
  41. pmc Yeast exosome mutants accumulate 3'-extended polyadenylated forms of U4 small nuclear RNA and small nucleolar RNAs
    A van Hoof
    Department of Molecular Biology, Howard Hughes Medical Institute, University of Arizona, Tucson, Arizona 85721, USA
    Mol Cell Biol 20:441-52. 2000
    ..This finding suggests that the cytoplasmic and nuclear forms of the exosome represent two functionally different complexes involved in distinct 3'-to-5' processing and degradation reactions...
  42. ncbi Essential role for the SMN complex in the specificity of snRNP assembly
    Livio Pellizzoni
    Howard Hughes Medical Institute and Department of Biochemistry and Biophysics, University of Pennsylvania School of Medicine, Philadelphia, PA 19104 6148, USA
    Science 298:1775-9. 2002
    ..Thus, the SMN complex functions as a specificity factor essential for the efficient assembly of Sm proteins on U snRNAs and likely protects cells from illicit, and potentially deleterious, nonspecific binding of Sm proteins to RNAs...
  43. ncbi SR proteins function in coupling RNAP II transcription to pre-mRNA splicing
    Rita Das
    Department of Cell Biology, Harvard Medical School, 240 Longwood Avenue, Boston, MA 02115, USA
    Mol Cell 26:867-81. 2007
    ..Thus, these factors readily out-compete inhibitory hnRNP proteins, resulting in efficient spliceosome assembly on nascent RNAP II transcripts...
  44. ncbi The human centromeric survival motor neuron gene (SMN2) rescues embryonic lethality in Smn(-/-) mice and results in a mouse with spinal muscular atrophy
    U R Monani
    Departments of Neurology, College of Medicine, Ohio State University, Columbus, OH 43210, USA
    Hum Mol Genet 9:333-9. 2000
    ..These results show that SMA is caused by insufficient SMN production by the SMN2 gene and that increased expression of the SMN2 gene may provide a strategy for treating SMA patients...
  45. pmc Phosphorylation of HuR by Chk2 regulates SIRT1 expression
    Kotb Abdelmohsen
    Laboratory of Cellular and Molecular Biology, Intramural Research Program, National Institute on Aging, National Institutes of Health, Baltimore, MD 21224, USA
    Mol Cell 25:543-57. 2007
    ..Our findings demonstrate that HuR regulates SIRT1 expression, underscore functional links between the two stress-response proteins, and implicate Chk2 in these processes...
  46. pmc Muscleblind-like 1 interacts with RNA hairpins in splicing target and pathogenic RNAs
    Yuan Yuan
    Department of Molecular Genetics and Microbiology and the Genetics Institute, University of Florida, College of Medicine, Gainesville, FL, USA
    Nucleic Acids Res 35:5474-86. 2007
    ..Our results provide a mechanistic basis for dsCUG-induced MBNL1 sequestration and highlight a striking similarity in the binding sites for MBNL proteins on splicing precursor and pathogenic RNAs...
  47. pmc RNA-binding protein Musashi family: roles for CNS stem cells and a subpopulation of ependymal cells revealed by targeted disruption and antisense ablation
    Shin Ichi Sakakibara
    Department of Histology and Neurobiology, Dokkyo University School of Medicine, Tochigi 321 0293, Japan
    Proc Natl Acad Sci U S A 99:15194-9. 2002
    ..Antisense-treated msi1(-/-) CNS stem cells showed a reduced proliferative activity. These data suggest that msi1 and msi2 are cooperatively involved in the proliferation and maintenance of CNS stem cell populations...
  48. pmc Binding of a novel SMG-1-Upf1-eRF1-eRF3 complex (SURF) to the exon junction complex triggers Upf1 phosphorylation and nonsense-mediated mRNA decay
    Isao Kashima
    Department of Molecular Biology, Yokohama City University School of Medicine, Yokohama 236 0004, Japan
    Genes Dev 20:355-67. 2006
    ..Thus, the SMG-1-mediated phosphorylation of Upf1 occurs on the association of SURF with EJC, which provides the link between the EJC and recognition of PTCs and triggers NMD...
  49. pmc BindN: a web-based tool for efficient prediction of DNA and RNA binding sites in amino acid sequences
    Liangjiang Wang
    Bioinformatics Center, Division of Biology, Kansas State University, Manhattan, Kansas 66506, USA
    Nucleic Acids Res 34:W243-8. 2006
    ..BindN provides a useful tool for understanding the function of DNA and RNA-binding proteins based on primary sequence data...
  50. pmc Processing bodies require RNA for assembly and contain nontranslating mRNAs
    Daniela Teixeira
    Department of Molecular and Cellular Biology and Howard Hughes Medical Institute, University of Arizona, Tucson, AZ 85721 0106, USA
    RNA 11:371-82. 2005
    ..Fourth, multiple translation factors and ribosomal proteins are lacking from P-bodies. These results suggest additional biological roles of P-bodies in addition to being sites of mRNA degradation...
  51. pmc Comparative analysis of mRNA targets for human PUF-family proteins suggests extensive interaction with the miRNA regulatory system
    Alessia Galgano
    Institute of Pharmaceutical Sciences, ETH Zurich, Zurich, Switzerland
    PLoS ONE 3:e3164. 2008
    ..Our work suggests extensive connections between the RBP and miRNA post-transcriptional regulatory systems and provides a framework for deciphering the molecular mechanism by which PUF proteins regulate their target mRNAs...
  52. ncbi Reversible cross-linking combined with immunoprecipitation to study RNA-protein interactions in vivo
    Somashe Niranjanakumari
    Department of Genetics, Duke University Medical Center, Durham, NC 27710, USA
    Methods 26:182-90. 2002
    ..The results indicate that the RIP assay is a powerful tool to identify RNA-protein interactions in vivo and has the potential to unravel the cellular network of RNP complexes in their native setting...
  53. ncbi Influenza virus NS1 protein interacts with the cellular 30 kDa subunit of CPSF and inhibits 3'end formation of cellular pre-mRNAs
    M E Nemeroff
    Department of Molecular Biology and Biochemistry Rutgers University Piscataway, New Jersey 08854, USA
    Mol Cell 1:991-1000. 1998
    ..Via this novel regulation of pre-mRNA 3' end processing, the NS1 protein selectively inhibits the nuclear export of cellular, and not viral, mRNAs...
  54. pmc Proteomic and functional analysis of Argonaute-containing mRNA-protein complexes in human cells
    Julia Höck
    Laboratory of RNA Biology, Max Planck Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany
    EMBO Rep 8:1052-60. 2007
    ..Using reporter assays and knockdown experiments, we showed that the putative RNA-binding protein RBM4 is required for microRNA-guided gene regulation...
  55. pmc The multifunctional protein p54nrb/PSF recruits the exonuclease XRN2 to facilitate pre-mRNA 3' processing and transcription termination
    Syuzo Kaneko
    Department of Biological Sciences, Columbia University, New York, New York 10027, USA
    Genes Dev 21:1779-89. 2007
    ..Together, our data indicate that p54nrb/PSF functions in recruitment of XRN2 to facilitate pre-mRNA 3' processing and transcription termination...
  56. pmc Movement of eukaryotic mRNAs between polysomes and cytoplasmic processing bodies
    Muriel Brengues
    Department of Molecular and Cellular Biology and Howard Hughes Medical Institute, University of Arizona, Tucson, AZ 85721 0106, USA
    Science 310:486-9. 2005
    ..Moreover, the presence of related proteins in P-bodies and maternal mRNA storage granules suggests this mechanism is widely adapted for mRNA storage...
  57. ncbi Disruption of an SF2/ASF-dependent exonic splicing enhancer in SMN2 causes spinal muscular atrophy in the absence of SMN1
    Luca Cartegni
    Cold Spring Harbor Laboratory, Cold Spring Harbor, New York 11724, USA
    Nat Genet 30:377-84. 2002
    ..The abrogation of the SF2/ASF-dependent ESE is the basis for inefficient inclusion of exon 7 in SMN2, resulting in the spinal muscular atrophy phenotype...
  58. ncbi Passenger-strand cleavage facilitates assembly of siRNA into Ago2-containing RNAi enzyme complexes
    Christian Matranga
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, Massachusetts 01605, USA
    Cell 123:607-20. 2005
    ..For siRNAs, virtually all RISC is assembled through this cleavage-assisted mechanism. In contrast, passenger-strand cleavage is not important for the incorporation of miRNAs that derive from mismatched duplexes...
  59. pmc The exon-exon junction complex provides a binding platform for factors involved in mRNA export and nonsense-mediated mRNA decay
    H Le Hir
    Howard Hughes Medical Institute, Department of Biochemistry, Brandeis University, 415 South Street, Waltham, MA 02454, USA
    EMBO J 20:4987-97. 2001
    ..Finally, we show that the composition of the EJC is dynamic in vivo and is subject to significant evolution upon mRNA export to the cytoplasm...
  60. pmc Protein ligands to HuR modulate its interaction with target mRNAs in vivo
    C M Brennan
    Department of Molecular Biophysics and Biochemistry, Howard Hughes Medical Institute, Yale University School of Medicine, New Haven, Connecticut 06536, USA
    J Cell Biol 151:1-14. 2000
    ..HuR, a ubiquitously expressed member of the ELAV (embryonic lethal abnormal vision) family of RNA binding proteins, selectively binds AREs and stabilizes ARE-containing mRNAs in transiently transfected cells...
  61. pmc Characterization of a beta-actin mRNA zipcode-binding protein
    A F Ross
    Department of Cell Biology, University of Massachusetts Medical School, Worcester 01655, USA
    Mol Cell Biol 17:2158-65. 1997
    ..These data suggest that the 68-kDa ZBP-1 we have isolated and cloned is an RNA-binding protein that functions within a complex to localize beta-actin mRNA...
  62. doi Cancer-associated regulation of alternative splicing
    Julian P Venables
    Laboratoire de génomique fonctionnelle de l Université de Sherbrooke, Sherbrooke, Quebec, Canada
    Nat Struct Mol Biol 16:670-6. 2009
    ..These results suggest that the decreased expression of FOX2 in cancer tissues modulates splicing and controls proliferation...
  63. pmc Reciprocal regulation of glycine-rich RNA-binding proteins via an interlocked feedback loop coupling alternative splicing to nonsense-mediated decay in Arabidopsis
    Jan C Schöning
    Molecular Cell Physiology, Bielefeld University, Bielefeld, Germany
    Nucleic Acids Res 36:6977-87. 2008
    ..A high degree of evolutionary sequence conservation in the introns retained in as_AtGRP8 or as_AtGRP7 points to an important function of these sequences...
  64. pmc Protein factors in pre-mRNA 3'-end processing
    C R Mandel
    Department of Biological Sciences, Columbia University, New York, NY 10027, USA
    Cell Mol Life Sci 65:1099-122. 2008
    ..The yeast machinery includes cleavage factor IA, cleavage factor IB, and cleavage and polyadenylation factor...
  65. ncbi Auto-regulation of the circadian slave oscillator component AtGRP7 and regulation of its targets is impaired by a single RNA recognition motif point mutation
    Jan C Schöning
    Department of Molecular Cell Physiology, University of Bielefeld, D 33615 Bielefeld, Germany
    Plant J 52:1119-30. 2007
    ....
  66. pmc Conserved GU-rich elements mediate mRNA decay by binding to CUG-binding protein 1
    Irina A Vlasova
    Center for Infectious Diseases and Microbiology Translational Research, University of Minnesota, Minneapolis, MN 55455, USA
    Mol Cell 29:263-70. 2008
    ..Overall, our results suggest that the GRE mediates coordinated mRNA decay by binding to CUGBP1...
  67. pmc Crossregulation and functional redundancy between the splicing regulator PTB and its paralogs nPTB and ROD1
    Rachel Spellman
    Department of Biochemistry, University of Cambridge, 80 Tennis Court Road, Cambridge, UK
    Mol Cell 27:420-34. 2007
    ..Our data indicate crossregulation between PTB and its paralogs via nonproductive alternative splicing and a large degree of functional overlap between PTB and nPTB...
  68. ncbi Human TRBP and PACT directly interact with each other and associate with dicer to facilitate the production of small interfering RNA
    Kin Hang Kok
    Department of Biochemistry, University of Hong Kong, 21 Sassoon Road, Pokfulam, Hong Kong, China
    J Biol Chem 282:17649-57. 2007
    ..Our work significantly alters the current model for the assembly and function of the Dicer-containing complex that generates siRNA and micro-RNA in human...
  69. pmc Diverse RNA-binding proteins interact with functionally related sets of RNAs, suggesting an extensive regulatory system
    Daniel J Hogan
    Department of Biochemistry, Stanford University School of Medicine, Stanford, California, United States of America
    PLoS Biol 6:e255. 2008
    ..These results strongly suggest that combinatorial binding of RBPs to specific recognition elements in mRNAs is a pervasive mechanism for multi-dimensional regulation of their post-transcriptional fate...
  70. ncbi CLIP: a method for identifying protein-RNA interaction sites in living cells
    Jernej Ule
    Howard Hughes Medical Institute and the Laboratory of Molecular Neuro Oncology, The Rockefeller University, New York, USA
    Methods 37:376-86. 2005
    ..Here, we present an improved protocol that performs RNA linker ligation before the SDS-PAGE step, and describe its application to the specific purification and amplification of RNA ligands of Nova in neurons...
  71. ncbi Nucleolin: a multiFACeTed protein
    Fabien Mongelard
    Laboratoire Joliot Curie, Ecole Normale Superieure de Lyon, 46 allee d Italie, 69007 Lyon, France
    Trends Cell Biol 17:80-6. 2007
    ..These new properties could help reconcile discrepancies in the literature regarding the role of nucleolin in transcription...
  72. pmc A transgene carrying an A2G missense mutation in the SMN gene modulates phenotypic severity in mice with severe (type I) spinal muscular atrophy
    Umrao R Monani
    Department of Neurology, Ohio State University, Columbus, OH 43210, USA
    J Cell Biol 160:41-52. 2003
    ..Our mild SMA mice will be useful in (a) determining the effect of missense mutations in vivo and in motor neurons and (b) testing potential therapies in SMA...
  73. pmc Altered synaptic plasticity in a mouse model of fragile X mental retardation
    Kimberly M Huber
    Department of Neuroscience, Howard Hughes Medical Institute, Brown University, Providence, RI 02912, USA
    Proc Natl Acad Sci U S A 99:7746-50. 2002
    ..This finding indicates that FMRP plays an important functional role in regulating activity-dependent synaptic plasticity in the brain and suggests new therapeutic approaches for fragile X syndrome...
  74. pmc A human sequence homologue of Staufen is an RNA-binding protein that is associated with polysomes and localizes to the rough endoplasmic reticulum
    R M Marion
    Centro Nacional de Biotecnologia CSIC, Cantoblanco, 28049 Madrid, Spain
    Mol Cell Biol 19:2212-9. 1999
    ..Furthermore, sedimentation analyses indicated that hStaufen-like protein associates with polysomes. These results are discussed in relation to the possible functions of the protein...
  75. ncbi Staufen, a gene required to localize maternal RNAs in the Drosophila egg
    D St Johnston
    Max Planck Institut für Entwicklungsbiologie Abteilung III Genetik, Tubingen, Federal Republic of Germany
    Cell 66:51-63. 1991
    ..By the time the egg is laid, staufen protein is also concentrated at the anterior pole, in the same region as bicoid RNA...
  76. pmc Stress granule assembly is mediated by prion-like aggregation of TIA-1
    Natalie Gilks
    Division of Rheumatology, Immunology, and Allergy, Brigham and Women s Hospital, Boston, MA 02115, USA
    Mol Biol Cell 15:5383-98. 2004
    ..Our results reveal that prion-like aggregation of TIA-1 regulates SG formation downstream of eIF2alpha phosphorylation in response to stress...
  77. pmc Signatures of RNA binding proteins globally coupled to effective microRNA target sites
    Anders Jacobsen
    The Bioinformatics Centre, Department of Biology, and Biotech Research and Innovation Centre BRIC, University of Copenhagen, Copenhagen 2200, Denmark
    Genome Res 20:1010-9. 2010
    ..Targeting may be modulated by other mRNA sequence elements such as binding sites for the hundreds of RNA binding proteins (RNA-BPs) expressed in any cell, and this aspect has not been systematically explored...
  78. pmc An RNA code for the FOX2 splicing regulator revealed by mapping RNA-protein interactions in stem cells
    Gene W Yeo
    Crick Jacobs Center for Theoretical and Computational Biology, Salk Institute, 10010 North Torrey Pines Road, La Jolla, California 92037, USA
    Nat Struct Mol Biol 16:130-7. 2009
    ..These findings suggest that FOX2 functions as a critical regulator of a splicing network, and we further show that FOX2 is important for the survival of human embryonic stem cells...
  79. pmc Tissue-specific splicing factor gene expression signatures
    Ana Rita Grosso
    Instituto de Medicina Molecular, Faculdade de Medicina, Universidade de Lisboa, 1649 028 Lisboa, Portugal
    Nucleic Acids Res 36:4823-32. 2008
    ..These results indicate the power of generating signature-based predictions as an initial computational approach into a global view of tissue-specific alternative splicing regulation...
  80. pmc Sus1 is recruited to coding regions and functions during transcription elongation in association with SAGA and TREX2
    Pau Pascual-García
    Centro de Investigacion Principe Felipe, E 46012 Valencia, Spain
    Genes Dev 22:2811-22. 2008
    ..Our results reveal that Sus1 plays a key role in coordinating gene transcription and mRNA export by working at the interface between the SAGA and TREX2 complexes during transcription elongation...
  81. ncbi The fate of dsRNA in the nucleus: a p54(nrb)-containing complex mediates the nuclear retention of promiscuously A-to-I edited RNAs
    Z Zhang
    Department of Microbiology, University of Connecticut Health Center, Farmington, CT 06030, USA
    Cell 106:465-75. 2001
    ..We provide evidence that one function of the complex identified here is to anchor hyperedited RNAs to the nuclear matrix, while allowing selectively edited mRNAs to be exported...
  82. pmc RNA-binding proteins hnRNP A2/B1 and CUGBP1 suppress fragile X CGG premutation repeat-induced neurodegeneration in a Drosophila model of FXTAS
    Oyinkan A Sofola
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA
    Neuron 55:565-71. 2007
    ..Furthermore, we show that hnRNP A2/B1 directly interacts with riboCGG repeats and that the CUGBP1 protein interacts with the riboCGG repeats via hnRNP A2/B1...
  83. pmc Normal microRNA maturation and germ-line stem cell maintenance requires Loquacious, a double-stranded RNA-binding domain protein
    Klaus Forstemann
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, Massachusetts, USA
    PLoS Biol 3:e236. 2005
    ..Thus, every known Drosophila RNase-III endonuclease is paired with a dsRBD protein that facilitates its function in small RNA biogenesis...
  84. doi RNA-binding proteins in human genetic disease
    Kiven E Lukong
    Terry Fox Molecular Oncology Group, and the Bloomfield Center for Research on Aging, Lady Davis Institute for Medical Research, Sir Mortimer B Davis Jewish General Hospital, Department of Medicine, McGill University, Montreal, Quebec H3T 1E2, Canada
    Trends Genet 24:416-25. 2008
    ..Here we review the emerging evidence showing the involvement of RBPs in many disease networks and conclude that defects in RNA metabolism caused by aberrations in RBPs might underlie a broader spectrum of complex human disorders...
  85. pmc The Nrd1-Nab3-Sen1 termination complex interacts with the Ser5-phosphorylated RNA polymerase II C-terminal domain
    Lidia Vasiljeva
    Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, 240 Longwood Avenue, Boston, Massachusetts 02115, USA
    Nat Struct Mol Biol 15:795-804. 2008
    ..Nrd1 recruitment to genes involves a combination of interactions with CTD and Nab3...
  86. pmc Defining the regulatory network of the tissue-specific splicing factors Fox-1 and Fox-2
    Chaolin Zhang
    Cold Spring Harbor Laboratory, Cold Spring Harbor, New York 11724, USA
    Genes Dev 22:2550-63. 2008
    ..We also identified instances of binding site creation or loss in different vertebrate lineages and human populations, which likely reflect fine-tuning of gene expression regulation during evolution...
  87. pmc Characterization of Staufen 1 ribonucleoprotein complexes
    Cornelia Brendel
    Institute for Cell Biochemistry and Clinical Neurobiology, University Hospital Hamburg Eppendorf, D 20246 Hamburg, Germany
    Biochem J 384:239-46. 2004
    ....
  88. ncbi Identification and characterization of a spinal muscular atrophy-determining gene
    S Lefebvre
    Unite de Recherches sur les Handicaps Genetiques de l Enfant, Institut National de la Sante et de la Recherche Medicale, Institut Necker, Hopital des Enfants Malades, Paris, France
    Cell 80:155-65. 1995
    ..These data suggest that this gene, termed the survival motor neuron (SMN) gene, is an SMA-determining gene...
  89. pmc The interaction between DCL1 and HYL1 is important for efficient and precise processing of pri-miRNA in plant microRNA biogenesis
    Yukio Kurihara
    Department of Life Sciences, Graduate School of Arts and Sciences, The University of Tokyo, Komaba 3 8 1, Meguro ku, Tokyo 153 8902, Japan
    RNA 12:206-12. 2006
    ..These results indicate that HYL1 has a function in assisting efficient and precise cleavage of pri-miRNA through interaction with DCL1...
  90. ncbi Microarray identification of FMRP-associated brain mRNAs and altered mRNA translational profiles in fragile X syndrome
    V Brown
    Howard Hughes Medical Institute, Department of Human Genetics, Department of Pediatrics, Atlanta, GA 30322, USA
    Cell 107:477-87. 2001
    ..We conclude that translational dysregulation of mRNAs normally associated with FMRP may be the proximal cause of fragile X syndrome, and we identify candidate genes relevant to this phenotype...
  91. ncbi 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...
  92. pmc Lin-28 binds IGF-2 mRNA and participates in skeletal myogenesis by increasing translation efficiency
    Anna Polesskaya
    Centre National de la Recherche Scientifique CNRS FRE 2944, Institut Andre Lwoff, Villejuif F 94801, France
    Genes Dev 21:1125-38. 2007
    ..Our results unravel novel mechanisms of translational regulation in skeletal muscle and suggest that Lin-28 performs the role of "translational enhancer" in embryonic and adult cells and tissues...
  93. ncbi A mouse model for spinal muscular atrophy
    H M Hsieh-Li
    Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan
    Nat Genet 24:66-70. 2000
    ..Our results demonstrate that SMN2 can partially compensate for lack of SMN1. The variable phenotypes of Smn-/-SMN2 mice reflect those seen in SMA patients, providing a mouse model for this disease...
  94. pmc Importance of the C-terminal domain of the human GW182 protein TNRC6C for translational repression
    Jakob T Zipprich
    Friedrich Miescher Institute for Biomedical Research, 4058 Basel, Switzerland
    RNA 15:781-93. 2009
    ..Through deletion and mutagenesis, we identified the C-terminal part of TNRC6C encompassing the RRM RNA-binding motif as a key effector domain mediating protein synthesis repression by TNRC6C...
  95. pmc RNA-binding proteins HuR and PTB promote the translation of hypoxia-inducible factor 1alpha
    Stefanie Galban
    LCMB, NIA, NIH, 5600 Nathan Shock Dr, Baltimore, MD 21224, USA
    Mol Cell Biol 28:93-107. 2008
    ..Conversely, HIF-1alpha expression and translation in response to CoCl(2) were markedly elevated after HuR overexpression. We propose that HuR and PTB jointly upregulate HIF-1alpha translation in response to CoCl(2)...
  96. ncbi Neurofilament accumulation at the motor endplate and lack of axonal sprouting in a spinal muscular atrophy mouse model
    Carmen Cifuentes-Diaz
    Molecular Neurogenetics Laboratory, Institut National de la Sante et de la Recherche Medicale INSERM, Université d Evry, EMI 9913, Genopole, 91057 Evry, France
    Hum Mol Genet 11:1439-47. 2002
    ..Smn mutant mice should represent a valuable model for elucidating the pathway linking Smn to cytoskeletal organization...
  97. ncbi Protein-RNA interactions: exploring binding patterns with a three-dimensional superposition analysis of high resolution structures
    N Morozova
    Department of Biochemistry and Cell Biology, Rice University 6100 Main Street, Houston, TX 77005, USA
    Bioinformatics 22:2746-52. 2006
    ..The diversity of RNA structures suggests that RNA recognition is substantially different than that of DNA...
  98. pmc The neural RNA-binding protein Musashi1 translationally regulates mammalian numb gene expression by interacting with its mRNA
    T Imai
    Department of Physiology, Keio University School of Medicine, Shinjuku, Tokyo 160 8582
    Mol Cell Biol 21:3888-900. 2001
    ..Furthermore, we found that Notch signaling activity was increased by Msi1 expression in connection with the posttranscriptional down-regulation of the m-numb gene...
  99. pmc Association of the yeast poly(A) tail binding protein with translation initiation factor eIF-4G
    S Z Tarun
    Department of Molecular and Cell Biology, University of California at Berkeley, 94720, USA
    EMBO J 15:7168-77. 1996
    ..Pab1p only bound to this region when complexed to poly(A). These data support the model that the Pablp-poly(A) tail complex on mRNA can interact with the cap structure via eIF-4G...
  100. pmc Arabidopsis primary microRNA processing proteins HYL1 and DCL1 define a nuclear body distinct from the Cajal body
    Liang Song
    Biology Department and Huck Institute of the Life Sciences, Pennsylvania State University, University Park, PA 16802, USA
    Proc Natl Acad Sci U S A 104:5437-42. 2007
    ..Thus, the distinct HYL1- and DCL1-containing nuclear bodies may be miRNA precursor processing sites. Alternatively, they may be assembly and storage sites for the miRNA precursor processing machinery...
  101. ncbi TAP, the human homolog of Mex67p, mediates CTE-dependent RNA export from the nucleus
    P Grüter
    Department of Molecular Biology, University of Geneva, Switzerland
    Mol Cell 1:649-59. 1998
    ..Thus, TAP, like its yeast homolog Mex67p, is a bona fide mRNA nuclear export mediator. TAP is the second cellular RNA binding protein shown to be directly involved in the export of its target RNA...

Research Grants72

  1. Genetic variation and regulatory networks: Mechanisms and complexity
    DANA PE ER; Fiscal Year: 2009
    ..These tools will be made publicly available, including a friendly graphical user interface and visualization. ..
  2. BIOCHEMISTRY OF PRE-MRNA SPLICING
    Adrian R Krainer; Fiscal Year: 2010
    ..The proposed studies are aimed at understanding basic cellular mechanisms of gene expression, and may provide the basis for developing or improving diagnostic tools and therapeutic agents for these diseases. ..
  3. IRON REGULATION OF GENE EXPRESSION
    ELIZABETH ANN LEIBOLD; Fiscal Year: 2013
    ..Increased knowledge of the mechanism by which IRP2 regulates iron balance and cell proliferation is important for developing therapeutics that can be used to target cancer cells and treat iron disorders. ..
  4. Delineation of the molecular mechanisms underlying group A Streptococcus virulenc
    Paul Sumby; Fiscal Year: 2013
    ..Public health may be enhanced through the long-term goal of translating knowledge of FASX regulatory pathways into new treatment and/or preventative regimes based upon the inhibition of these pathways by novel antimicrobial agents. ..
  5. MRNA PROCESSING IN REPRODUCTION AND FERTILIZATION
    Clinton C MacDonald; Fiscal Year: 2013
    ..Using a variety of techniques, we want to learn the molecular causes of why sperm production fails in males missing the CSTF2T gene, to better understand how to assist these infertile couples. ..
  6. PlGF-HIF1a-miRNA Axis in Sickle Pulmonary Hypertension
    Punam Malik; Fiscal Year: 2013
    ..transcriptional mechanisms which regulate PlGF-mediated expression of HIF-1a, ET-1 and PAI-1 and identify RNA binding proteins and the specific miRs involved in binding to mRNA 3'UTRs thus regulating translation of HIF-1a, ET-1, ..
  7. Model of the Human Testis for Reproductive Toxicology
    PAUL JACOB TUREK; Fiscal Year: 2011
    ....
  8. Characterizing gene regulation with single molecule sensitive probes
    Philip J Santangelo; Fiscal Year: 2013
    ..Alterations in cis-acting sequences, RNA binding proteins, or in upstream signaling pathways affect the stability and/or translational efficiency of mRNAs encoding ..
  9. ALS therapies and genomics for mutant TDP-43 and TLS/FUS
    Don W Cleveland; Fiscal Year: 2010
    ..shift in understanding ALS has been initiated by discovery that mutations in two strikingly similar DNA/RNA binding proteins, TAR DNA-binding protein (TDP-43) and Fused in sarcoma (FUS/TLS), are also primary causes of ALS...
  10. IMMUNOLOGIC BASIS OF RESISTANCE AND HYPERSENSITIVITY
    KARL FRANK AUSTEN; Fiscal Year: 2012
    ..Characterization of these proinflammatory pathways allows for therapeutic approaches based on targeted intervention. ..
  11. MOLECULAR REGULATION OF ILEAL/RENAL BILE ACID TRANSPORT
    Benjamin L Shneider; Fiscal Year: 2012
    ..These studies will advance our understanding of the regulation of ASBT and provide new ways to understand and treat intestinal and liver diseases. ..
  12. MOLECULAR MIMICRY IN IMMUNE MEDIATED NEUROLOGIC DISEASE
    Michael Levin; Fiscal Year: 2013
    ..The purpose of this proposal is to examine how antibodies to RNA binding proteins (RBPs) cause neurodegeneration in MS...
  13. Structural Studies of RNA Maturation and Processing
    Christopher D Lima; Fiscal Year: 2013
    ..and reconstituting complexes that contain the Mtr4 RNA helicase, the Trf poly(A) polymerases and the Air RNA binding proteins. These preparations will be used in conjunction with our reconstituted RNA exosomes in biochemical assays ..
  14. Mechanism of p63-Dependent Tumor Suppression
    Xinbin Chen; Fiscal Year: 2012
    ..Thus, the regulation of ?Np63 expression by RNPC1 and Dec1 can be explored as a potential therapeutic strategy to manage tumors with amplified and/or over- expressed ?Np63. ..
  15. MOLECULAR MODELS OF IMMUNE-MEDIATED VASCULAR INJURY
    Jeffrey R Bender; Fiscal Year: 2012
    ....
  16. PHOSPHOPEPTIDE METABOLISM IN ADIPOCYTES
    Joseph Avruch; Fiscal Year: 2013
    ..We will also determine how TOR complex 1 controls the translation of RNAs that bind to the protein IMP2, variants of whose gene appear to confer susceptibility to type 2 diabetes. ..
  17. Role of FUS in ALS
    Haining Zhu; Fiscal Year: 2013
    ..The findings are expected to provide critical insights into the mechanisms by which FUS mutations perturb the RNA processing pathways and ultimately lead to the disease. ..
  18. Alternative regulation of ISGs in WNV-infected cells
    Margo A Brinton; Fiscal Year: 2013
    ..Under Aim 2, the contributions of ISG mRNA stability, cell RNA binding proteins and cell miRNAs in reducing protein levels expressed by a subset of ISGs in WNV-infected cells will be ..
  19. A novel therapy for HER2 positive hormone refractory breast cancer
    Anne W Hamburger; Fiscal Year: 2010
    ..Our studies would establish EBP1 as a new therapeutic agent in breast cancer to restore hormone sensitivity in cells which overexpress ErbB receptors. ..
  20. Using Drosophila as a model to understand TDP-43 function in ALS
    David B Morton; Fiscal Year: 2012
    ....
  21. Heat Shock-Induced Apoptosis
    Shawn B Bratton; Fiscal Year: 2012
    ..Thus, it is anticipated that the work proposed herein will significantly improve our understanding of how heat shock works in the clinic and may shed light on new pathways that can be exploited therapeutically in the future. ..
  22. MECHANISMS OF AUTOIMMUNITY IN SLE
    David Stephen Pisetsky; Fiscal Year: 2013
    ..to nucleosomes and its DNA and histone components are the most characteristic of SLE, antibodies to RNA and RNA binding proteins may display similar pathogenetic properties...
  23. IL8-induced Post-transcriptional Regulation of the MUC5AC mucin gene
    Mary C Rose; Fiscal Year: 2010
    ..mechanisms of MUC5AC gene regulation are markedly understudied, but predictably are mediated by RNA binding proteins (RBPs) and/or microRNA (miRNAs), a newly identified mechanism for post- transcriptional regulation...
  24. Functions of nuclear non-canonical poly(A) polymerases in Trypanosomes
    Ruslan Aphasizhev; Fiscal Year: 2010
    ..We have identified four RNA binding proteins, Mtr4 helicase, and a second putative DEAD box helicase in affinity-purified ncPAP1 complex, but no exosome ..
  25. Coordination of metabolism and virulence during infection
    Tony Romeo; Fiscal Year: 2013
    ..Thus, an understanding of the conditions and stimuli affecting SirA and CsrA activities and the mechanisms by which these proteins coordinate virulence and metabolic gene expression may be applicable to a broad range of pathogens. ..
  26. Genetics and Genomics of the yidC paralogs in Streptococcus mutans
    SARA MARIE RASER PALMER; Fiscal Year: 2013
    ..The data generated will provide essential new information that can be used to design novel and more effective therapies to combat dental caries and other bacterial infections. ..
  27. Characterization of a novel role for DEAD-box RNA helicases in bacteria.
    CHRISTOPHER ANTHONY VAKULSKAS; Fiscal Year: 2013
    ....
  28. Improvement of Organ Function after Severe Hypovolemia
    Ping Wang; Fiscal Year: 2013
    ..These proposed studies should open up a new research field for the development of innovative therapeutic agents as resuscitation adjuncts for victims with traumatic hemorrhage. ..
  29. The Functional Role of RBM45 in Gene Expression and Neurodegeneration
    Mahlon Collins; Fiscal Year: 2013
    ..of ALS neurodegeneration has implicated impaired RNA processing and intracytoplasmic aggregation of RNA binding proteins in cell death...
  30. Role of an RNA-Binding Protein in Mammary Carcinogenesis
    Jeffrey Ross; Fiscal Year: 2009
    ..By investigating the oncogenic properties of the CRD-BP, the RNAs it affects in vivo, and its interactions with tumor-inducing genetic and environmental factors, we hope to uncover novel tumorigenesis pathways. ..
  31. Apigenin restores TSP-1 expression in UVB-irradiated keratinocytes
    Jill C Pelling; Fiscal Year: 2013
    ..Identifying TSP-1 as a key target of apigenin and demonstrating its important role in chemoprevention by Api will provide a new target and rationale for improved treatment and prevention strategies for NMSC. ..
  32. Role and Function of RNA-Binding Protein La in Oral Tumor Progression
    Gunhild Sommer; Fiscal Year: 2012
    ....
  33. Regulation and Function of Germline RNP Granules
    JENNIFER SCHISA; Fiscal Year: 2010
    ..This research tests the hypothesis that large RNP granules play a protective role in maintaining oocyte viability and fertility and may be relevant to understanding the basis for infertility that occurs as women age. ..
  34. Regulation of Cell Growth by RNA Binding Proteins
    Nikolai A Timchenko; Fiscal Year: 2012
    ..The goals of this application are 1) to examine the role of RNA binding proteins in the development of liver tumors;2) elucidate mechanisms by which proliferating livers activate RNA ..
  35. Defining the messenger RNP code in the brain
    EUGENE WEI MING YEO; Fiscal Year: 2013
    DESCRIPTION (provided by applicant): RNA binding proteins (RBPs) interact with functional RNA elements embedded within pre- and mature messenger RNA to form messenger ribonucleoprotein (mRNP) complexes...
  36. RNA quality control and environmental stress
    Sandra L Wolin; Fiscal Year: 2013
    ....
  37. Regulation of a Novel Trypanosome RNA Binding Protein by Arginine Methylation
    Kaylen Lott; Fiscal Year: 2013
    ..relies largely on posttranscriptional processes such as RNA stability and translation, thereby making RNA binding proteins (RBPs) critical regulators of cellular function...
  38. ENTEROHEPATIC LIPID FLUX AND APOPROTEIN BIOSYNTHESIS
    NICHOLAS DAVIDSON; Fiscal Year: 2013
    ..of new functions and unanticipated roles for the core components of the apoB RNA editing enzyme, namely the RNA binding proteins Apobec-1 and Apobec-1 complementation factor (ACF) and their functional interactions with apoB/Mttp...
  39. Mechanism of p73-dependent tumor suppression
    Xinbin Chen; Fiscal Year: 2013
    ..Thus, the regulation of DNp73 expression by HDACs, RNPC1 and Dec1 can be explored as a potential therapeutic strategy to manage tumors with amplified and/or over-expressed DNp73. ..
  40. Illumina Sequencer to Facilitate Functional Genomics at Berkeley
    John W Taylor; Fiscal Year: 2010
    ..proteins, determining the genome-wide distribution of epigenetic marks, cataloging the RNAs bound by RNA binding proteins, pinpointing mutants and genotyping individuals from large crosses...
  41. Functions of 5'NCRs of picornavirus and cellular mRNAs
    Bert L Semler; Fiscal Year: 2013
    ..These structures (i.e., IRES elements) bind several host RNA binding proteins, including poly(rC) binding protein 2 (PCBP2)...
  42. Role of Ca2+/Calcineurin Signaling in S. cerevisiae
    Martha S Cyert; Fiscal Year: 2013
    ..Preliminary observations suggest roles for CN and Whi3 in yeast stress granules, which form in response to glucose starvation and contain non-translating mRNAs complexed with initiation factors. ..
  43. RNA Dynamics of Transient Macromolecular Complexes in Cancer Cells
    Jack D Keene; Fiscal Year: 2013
    ....
  44. Regulation of SMN and Identification of its Downstream Target
    Judith Jebanathirajah Steen; Fiscal Year: 2013
    ..abstract_text> ..
  45. Functional study of novel transcriptional regulators of hematopoietic stem cells
    Shannon L McKinney-Freeman; Fiscal Year: 2012
    ..By uncovering novel molecular regulators of their function and development, we can achieve a better understanding of their aberrant function and develop novel therapies to treat hematologic disease. ..
  46. Roles of RNA helicase and ribosomal biogenesis in normal and diseased muscle
    Vandana Gupta; Fiscal Year: 2013
    ..The support provided with K01 award will help her to complete her training and with provide her with a launch pad to obtain data for a successful R01 application to fund her future work. ..
  47. Coupling of Transcription with Pre-mRNA Metabolism
    DAVID LEONARD BENTLEY; Fiscal Year: 2013
    ..to produce a precursor that is matured by capping, splicing and cleavage/polyadenylation and packaged with RNA binding proteins into mRNP's for export to the cytoplasm...
  48. Regulation of Germ Cell Pluripotency Through The RNA-Binding Protein, DND1
    Blanche Capel; Fiscal Year: 2013
    ..Although DND1 is specific to germ cells, we anticipate that the regulatory mechanisms involved may be common to many pluripotent stem cell populations. ..
  49. Titin Splicing Mechanisms and Physical Implications
    Marion L Greaser; Fiscal Year: 2010
    ..In addition the rat mutation model we have developed should help to understand mechanisms of cardiac arrhythmia and sudden death. ..
  50. A role for miRNAs in adenosine-dependent alternative macrophage activation
    Samuel Joseph Leibovich; Fiscal Year: 2013
    ..that LPS regulates the interaction of the PLCb2 3'UTR with regulatory factors such as miRNAs or RNA binding proteins that are involved in stabilizing the mRNA...
  51. Synergistic innate immune activation and cell killing by RIG-I ligands in HCV-HCC
    Lee Gehrke; Fiscal Year: 2013
    ..This proposal has the potential to foster new ideas about how both HCV infection and the liver cancer that often follows can be treated or prevented. ..
  52. Modulation of Hepatocellular Function in Sepsis
    Ping Wang; Fiscal Year: 2013
    ..The proposed studies should open up a new research arena for the development of innovative therapeutics for patients with sepsis and septic shock. ..
  53. Germline Silencing of Unpaired Chromatin
    Eleanor M Maine; Fiscal Year: 2013
    ..The project will investigate processes that are required for formation of functional sperm and eggs, and which may also help to reduce the susceptibility of offspring to particular diseases. ..
  54. Control of Oocyte Maturation in C. elegans
    DAVID IRWIN GREENSTEIN; Fiscal Year: 2013
    ..The small roundworm C. elegans is an established model for studying the hormonal control of meiosis. These studies will define the signaling mechanisms controlling female meiosis and provide insights into the origin of meiotic errors. ..
  55. The Role of Sam68 in Synaptic Transmission and Plasticity
    Matthew Klein; Fiscal Year: 2013
    ..Understanding this role will be helpful for guiding the development of therapies for neurological disorders resulting from dysfunction of Sam68 and related proteins. ..
  56. Role of MEF2 and neural activity in cortical synaptic weakening and elimination
    Kimberly M Huber; Fiscal Year: 2013
    ..In Aim 4 we will use optogenetics and electrical stimulation to establish an in vitro model of novelty-induced priming of LTD to reveal cellular mechanisms. ..
  57. Molecular mechanisms of Myotonic Dystrophy 1
    Lubov T Timchenko; Fiscal Year: 2012
    ..We propose to apply basic science expertise to define the mechanism of muscle immaturity and mechanisms of a delay of muscle regeneration in DM1 with the goal to develop approaches for the clinical therapy of patients with DM1. ..
  58. A Neural Development mRNA Decay Network
    Michael Cleary; Fiscal Year: 2013
    ..This work will generate a comprehensive and predictive network map of neural mRNA decay dynamics, thus filling a significant gap in current models of gene expression during neural development. ..
  59. Genetic Regulation of Complex Neurological Disease
    Wayne N Frankel; Fiscal Year: 2012
    ..the gene encoding Brunol4, a brain-specific, hippocampus-enriched member of the Bruno/CUGBP/CELF family of RNA binding proteins. Brunol4 mutants have a complex seizure disorder, depending upon Brunol4 genotype and genetic background, ..
  60. DNA Demethylation and Transcriptional Gene Silencing
    Jian Kang Zhu; Fiscal Year: 2013
    ..The proposed work will advance new concepts and fill major gaps in our understanding of the dynamic control of DNA methylation, and thus will contribute significantly to elucidating the molecular basis of epigenetic regulation. ..
  61. Post-Transcriptional Regulation in Colorectal Cancer
    DAN ALAN DIXON; Fiscal Year: 2013
    ....
  62. Deciphering the role of the RNA-binding protein, FXR1, in cardiac muscle assembly
    Carol C Gregorio; Fiscal Year: 2013
    ..Furthermore, the discovery of mRNA targets regulated by FXR1 during normal development and in diseased states may identify novel therapeutic approaches for heart disease. ..
  63. STRUCTURES OF RNA BINDING PROTEINS FROM INFLUENZA VIRUS
    Gaetano Montelione; Fiscal Year: 2000
    ..These analogs will have great significance both in fundamental studies as well as in treating (or in developing drugs for) obesity, hypertension and failing heart. ..
  64. ENTEROHEPATIC LIPID FLUX AND APOPROTEIN BIOSYNTHESIS.
    NICHOLAS DAVIDSON; Fiscal Year: 2009
    ..We will examine the hypothesis in the current application that there are other cytidine deaminases, related to apobec-1, with functions involving site-specific RNA interactions. ..
  65. Functional studies of the Fragile X Mental Retardation Protein: switching from re
    Mihaela Mihailescu; Fiscal Year: 2009
    ....
  66. POSTTRANSCRIPTIONAL REGULATION OF ANTIOXIDANT ENZYMES
    LINDA CLERCH; Fiscal Year: 2002
    ....
  67. DEREGULATION BY HU PROTEINS IN LUNG CANCER
    Ite Laird Offringa; Fiscal Year: 2002
    ..The study of the role of Hu proteins in SCLC offers a unique opportunity to begin to understand the role of RNA- binding proteins in the development and progression of cancer. ..
  68. Mechanism of cell size checkpoint control by a Musahi-like RNA binding protein
    Bradley J S C Olson; Fiscal Year: 2010
    ..The knowledge obtained from these studies may therefore be directly applicable to understanding basic principles that govern regulators that are central to human disease and stem cell maintenance. ..
  69. THYROID/RETINOIC ACID RECEPTOR INTERACTING PROTEINS
    Mukul Mathur; Fiscal Year: 2004
    ..Thus, the three RNA binding proteins that interact with nuclear receptors also turn into an oncogene when fused to a transcription factor and ..
  70. RNA Binding Proteins & Alternative Splicing
    Paula Grabowski; Fiscal Year: 2007
    ..This research project will advance our understanding of the underlying mechanisms and plasticity of neuron-specific splicing, and provide insights into how these mechanisms fail in human disease. ..
  71. Protein Arginine Methylation in Trypanosomes
    LAURIE READ; Fiscal Year: 2009
    Protein arginine (arg) methylation is a common posttranslational modification of RNA binding proteins (RNA BPs) in yeast and mammals...
  72. Structural Diversity of RNA-Binding Proteins
    Alan Frankel; Fiscal Year: 2004
    ....