TIMOTHY NILSEN

Summary

Affiliation: Case Western Reserve University
Country: USA

Publications

  1. ncbi request reprint Mechanisms of microRNA-mediated gene regulation in animal cells
    Timothy W Nilsen
    Center for RNA Molecular Biology, Case Western Reserve University, School of Medicine, W127, 10900 Euclid Avenue Cleveland, OH 44106 4973, USA
    Trends Genet 23:243-9. 2007
  2. ncbi request reprint RNA 1997-2007: a remarkable decade of discovery
    Timothy W Nilsen
    Center for RNA Molecular Biology, School of Medicine, Case Western Reserve University, W127, 10900 Euclid Avenue, Cleveland, OH 44106 4973, USA
    Mol Cell 28:715-20. 2007
  3. pmc Reprogramming of the non-coding transcriptome during brain development
    Saba Valadkhan
    Center for RNA Molecular Biology, Case Western Reserve University, Cleveland, OH 44106, USA
    J Biol 9:5. 2010
  4. pmc Expansion of the eukaryotic proteome by alternative splicing
    Timothy W Nilsen
    Center for RNA Molecular Biology, Department of Biochemistry, Case Western Reserve University, School of Medicine, 10900 Euclid Avenue, Cleveland, Ohio 44106, USA
    Nature 463:457-63. 2010
  5. pmc Dynamic regulation of alternative splicing by silencers that modulate 5' splice site competition
    Yang Yu
    Center for RNA Molecular Biology, Case Western Reserve University, Cleveland, OH 44106, USA
    Cell 135:1224-36. 2008
  6. ncbi request reprint Evidence that microRNAs are associated with translating messenger RNAs in human cells
    Patricia A Maroney
    Center for RNA Molecular Biology and Department of Biochemistry, Case Western Reserve University School of Medicine, W127 10900 Euclid Avenue, Cleveland, Ohio 44106 4973, USA
    Nat Struct Mol Biol 13:1102-7. 2006
  7. ncbi request reprint Protein displacement by DExH/D "RNA helicases" without duplex unwinding
    Margaret E Fairman
    Department of Biochemistry, School of Medicine, Case Western Reserve University, Cleveland, OH 44106, USA
    Science 304:730-4. 2004
  8. pmc A rapid, quantitative assay for direct detection of microRNAs and other small RNAs using splinted ligation
    Patricia A Maroney
    Center for RNA Molecular Biology and Department of Biochemistry, Case Western Reserve University, School of Medicine, Cleveland, Ohio 44106 4973, USA
    RNA 13:930-6. 2007
  9. ncbi request reprint Molecular biology. When a part is as good as the whole
    Pieter L deHaseth
    RNA Center and Department of Biochemistry, Case Western Reserve University, Cleveland, OH 44106, USA
    Science 303:1307-8. 2004
  10. doi request reprint Direct detection of small RNAs using splinted ligation
    Patricia A Maroney
    Center for RNA Molecular Biology, Case Western Reserve University, School of Medicine, W127 10900 Euclid Avenue, Cleveland, Ohio 44106 4973, USA
    Nat Protoc 3:279-87. 2008

Research Grants

  1. TRANS SPLICING OF NEMATODE PREMESSENGER RNA
    TIMOTHY NILSEN; Fiscal Year: 2000
  2. GENE EXPRESSION IN HUMAN PARASITIC NEMATODES
    TIMOTHY NILSEN; Fiscal Year: 2004
  3. U1 snRNP and splice site recognition in vertebrate cells
    TIMOTHY NILSEN; Fiscal Year: 2006
  4. GENE EXPRESSION IN HUMAN PARASITIC NEMATODES
    TIMOTHY NILSEN; Fiscal Year: 2007
  5. TRANS-SPLICING OF NEMATODE PRE-MESSENGER RNA
    TIMOTHY NILSEN; Fiscal Year: 1993
  6. IN VITRO PROCESSING OF EUKARYOTIC RIBOSOMAL RNA
    TIMOTHY NILSEN; Fiscal Year: 1991
  7. GENE EXPRESSION IN HUMAN PARASITIC NEMATODES
    TIMOTHY NILSEN; Fiscal Year: 1999
  8. GENE EXPRESSION IN HUMAN PARASITIC NEMATODES
    TIMOTHY NILSEN; Fiscal Year: 1993
  9. GENE EXPRESSION IN HUMAN PARASITIC NEMATODES
    TIMOTHY NILSEN; Fiscal Year: 2009

Collaborators

  • Eckhard Jankowsky
  • BRENTON GRAVELEY
  • Saba Valadkhan
  • Patricia A Maroney
  • Yang Yu
  • Frédéric Souret
  • Sangpen Chamnongpol
  • Margaret E Fairman
  • Pieter L deHaseth
  • Reinhard Luhrmann
  • Xiang H F Zhang
  • John A Denker
  • Olexandr Dybkov
  • Lawrence A Chasin
  • Jesse Fisher
  • Wen Wang
  • Heath A Bowers
  • Paul Gollnick

Detail Information

Publications13

  1. ncbi request reprint Mechanisms of microRNA-mediated gene regulation in animal cells
    Timothy W Nilsen
    Center for RNA Molecular Biology, Case Western Reserve University, School of Medicine, W127, 10900 Euclid Avenue Cleveland, OH 44106 4973, USA
    Trends Genet 23:243-9. 2007
    ..In this review, I describe the evidence that there are multiple mechanisms of microRNA-mediated repression and discuss the possible connections between these mechanisms...
  2. ncbi request reprint RNA 1997-2007: a remarkable decade of discovery
    Timothy W Nilsen
    Center for RNA Molecular Biology, School of Medicine, Case Western Reserve University, W127, 10900 Euclid Avenue, Cleveland, OH 44106 4973, USA
    Mol Cell 28:715-20. 2007
    ..This perspective briefly reviews where we are today and where we might be 10 years hence...
  3. pmc Reprogramming of the non-coding transcriptome during brain development
    Saba Valadkhan
    Center for RNA Molecular Biology, Case Western Reserve University, Cleveland, OH 44106, USA
    J Biol 9:5. 2010
    ....
  4. pmc Expansion of the eukaryotic proteome by alternative splicing
    Timothy W Nilsen
    Center for RNA Molecular Biology, Department of Biochemistry, Case Western Reserve University, School of Medicine, 10900 Euclid Avenue, Cleveland, Ohio 44106, USA
    Nature 463:457-63. 2010
    ..It is now clear that the 'missing' information is in large part provided by alternative splicing, the process by which multiple different functional messenger RNAs, and therefore proteins, can be synthesized from a single gene...
  5. pmc Dynamic regulation of alternative splicing by silencers that modulate 5' splice site competition
    Yang Yu
    Center for RNA Molecular Biology, Case Western Reserve University, Cleveland, OH 44106, USA
    Cell 135:1224-36. 2008
    ..The data indicate that perturbations of non-rate-limiting step(s) in splicing can lead to dramatic shifts in splice site choice...
  6. ncbi request reprint Evidence that microRNAs are associated with translating messenger RNAs in human cells
    Patricia A Maroney
    Center for RNA Molecular Biology and Department of Biochemistry, Case Western Reserve University School of Medicine, W127 10900 Euclid Avenue, Cleveland, Ohio 44106 4973, USA
    Nat Struct Mol Biol 13:1102-7. 2006
    ..Several lines of evidence indicate that most of these mRNAs, including a known miRNA-regulated target (KRAS mRNA), are actively being translated...
  7. ncbi request reprint Protein displacement by DExH/D "RNA helicases" without duplex unwinding
    Margaret E Fairman
    Department of Biochemistry, School of Medicine, Case Western Reserve University, Cleveland, OH 44106, USA
    Science 304:730-4. 2004
    ..Therefore, the essential functions of DExH/D proteins are not confined to RNA duplexes but can be exerted on a wide range of ribonucleoprotein substrates...
  8. pmc A rapid, quantitative assay for direct detection of microRNAs and other small RNAs using splinted ligation
    Patricia A Maroney
    Center for RNA Molecular Biology and Department of Biochemistry, Case Western Reserve University, School of Medicine, Cleveland, Ohio 44106 4973, USA
    RNA 13:930-6. 2007
    ..We demonstrate that the method can be used to detect various classes of small regulatory RNAs from different organisms...
  9. ncbi request reprint Molecular biology. When a part is as good as the whole
    Pieter L deHaseth
    RNA Center and Department of Biochemistry, Case Western Reserve University, Cleveland, OH 44106, USA
    Science 303:1307-8. 2004
  10. doi request reprint Direct detection of small RNAs using splinted ligation
    Patricia A Maroney
    Center for RNA Molecular Biology, Case Western Reserve University, School of Medicine, W127 10900 Euclid Avenue, Cleveland, Ohio 44106 4973, USA
    Nat Protoc 3:279-87. 2008
    ..Once the oligonucleotides have been synthesized and total RNA has been extracted, the procedure can be completed in 6 h...
  11. ncbi request reprint The spliceosome: the most complex macromolecular machine in the cell?
    Timothy W Nilsen
    Center for RNA Molecular Biology, Case Western Reserve University School of Medicine, 10900 Euclid Avenue, Cleveland, OH 44106 4973, USA
    Bioessays 25:1147-9. 2003
    ..These studies, recently reviewed by Jurica and Moore,1 reveal that the spliceosome is composed of as many as 300 distinct proteins and five RNAs, making it among the most complex macromolecular machines known...
  12. ncbi request reprint The spliceosome: no assembly required?
    Timothy W Nilsen
    Center for RNA Molecular Biology, Case Western Reserve University School of Medicine, 10900 Euclid Avenue, 44106, Cleveland, OH, USA
    Mol Cell 9:8-9. 2002
    ..The existence of this "penta-snRNP" suggests the provocative possibility that spliceosome assembly does not depend upon a pre-mRNA substrate...
  13. ncbi request reprint Spliceosome assembly in yeast: one ChIP at a time?
    Timothy W Nilsen
    Nat Struct Mol Biol 12:571-3. 2005

Research Grants39

  1. TRANS SPLICING OF NEMATODE PREMESSENGER RNA
    TIMOTHY NILSEN; Fiscal Year: 2000
    ..A thorough understanding of trans-splicing, particularly how it differs biochemically from cis-splicing, may suggest possible avenues for therapeutic intervention in diseases caused by these pathogens. ..
  2. GENE EXPRESSION IN HUMAN PARASITIC NEMATODES
    TIMOTHY NILSEN; Fiscal Year: 2004
    ..Finally, a thorough understanding of trans-splicing may suggest possible avenues for therapeutic intervention in diseases caused by parasitic organisms that employ this pre-mRNA processing pathway. ..
  3. U1 snRNP and splice site recognition in vertebrate cells
    TIMOTHY NILSEN; Fiscal Year: 2006
    ..Furthermore, the results may be relevant to our understanding of regulated alternative splicing. ..
  4. GENE EXPRESSION IN HUMAN PARASITIC NEMATODES
    TIMOTHY NILSEN; Fiscal Year: 2007
    ..They may also provide novel information relevant to the coupling of splicing and post-processing mRNA metabolism. ..
  5. TRANS-SPLICING OF NEMATODE PRE-MESSENGER RNA
    TIMOTHY NILSEN; Fiscal Year: 1993
    ..Finally, functional reconstitution of synthetic U snRNAs will be used to define the sequences and or domains of individual U snRNAs required for cis- and trans-splicing...
  6. IN VITRO PROCESSING OF EUKARYOTIC RIBOSOMAL RNA
    TIMOTHY NILSEN; Fiscal Year: 1991
    ..Subsequently, similar methodologies will be used to define parameters governing processing at the 3' end of 18S RNA, the 5' and 3' ends of 5.8S RNA and the 5' end of 28S RNA...
  7. GENE EXPRESSION IN HUMAN PARASITIC NEMATODES
    TIMOTHY NILSEN; Fiscal Year: 1999
    ..A thorough understanding of this unusual RNA processing reaction may suggest novel strategies for therapeutic intervention in these parasitic diseases. ..
  8. GENE EXPRESSION IN HUMAN PARASITIC NEMATODES
    TIMOTHY NILSEN; Fiscal Year: 1993
    ..Such information is a necessary prerequisite to the understanding of complex questions regarding the molecular basis of parasitism and may suggest novel therapeutic strategies for control of parasite nematode infection...
  9. GENE EXPRESSION IN HUMAN PARASITIC NEMATODES
    TIMOTHY NILSEN; Fiscal Year: 2009
    ..They may also provide novel information relevant to the coupling of splicing and post-processing mRNA metabolism. ..