BRENTON GRAVELEY

Summary

Affiliation: University of Connecticut Health Center
Country: USA

Publications

  1. pmc Splicing from the outside in
    Li Yang
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, CT 06030 3301, USA
    Mol Cell 27:861-2. 2007
  2. doi request reprint Molecular biology: power sequencing
    Brenton R Graveley
    Nature 453:1197-8. 2008
  3. pmc Transcriptome analysis reveals strain-specific and conserved stemness genes in Schmidtea mediterranea
    Alissa M Resch
    Department of Genetics and Developmental Biology, Stem Cell Institute, Health Center, University of Connecticut, Farmington, Connecticut, United States of America
    PLoS ONE 7:e34447. 2012
  4. pmc Genomewide characterization of non-polyadenylated RNAs
    Li Yang
    Department of Genetics and Developmental Biology, University of Connecticut Stem Cell Institute, University of Connecticut Health Center, 263 Farmington Ave, Farmington, CT 06030 6403, USA
    Genome Biol 12:R16. 2011
  5. pmc Small molecule control of pre-mRNA splicing
    Brenton R Graveley
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, CT 06030, USA
    RNA 11:355-8. 2005
  6. pmc Mutually exclusive splicing of the insect Dscam pre-mRNA directed by competing intronic RNA secondary structures
    Brenton R Graveley
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, Famington, CT 06030, USA
    Cell 123:65-73. 2005
  7. pmc The haplo-spliceo-transcriptome: common variations in alternative splicing in the human population
    Brenton R Graveley
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, Farmington, CT 06030 3301, USA
    Trends Genet 24:5-7. 2008
  8. pmc The developmental transcriptome of Drosophila melanogaster
    Brenton R Graveley
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, Connecticut 06030 6403, USA
    Nature 471:473-9. 2011
  9. ncbi request reprint Sex, AGility, and the regulation of alternative splicing
    Brenton R Graveley
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington 06030, USA
    Cell 109:409-12. 2002
  10. ncbi request reprint Splicing up pluripotency
    Brenton R Graveley
    Department of Genetics and Developmental Biology, University of Connecticut Stem Cell Institute, University of Connecticut Health Center, Farmington, CT 06030, USA
    Cell 147:22-4. 2011

Collaborators

Detail Information

Publications36

  1. pmc Splicing from the outside in
    Li Yang
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, CT 06030 3301, USA
    Mol Cell 27:861-2. 2007
    ..A new study in this issue of Molecular Cell (Pleiss et al., 2007b) shows that changes in the environment rapidly alter the splicing efficiency of specific pre-mRNAs in yeast...
  2. doi request reprint Molecular biology: power sequencing
    Brenton R Graveley
    Nature 453:1197-8. 2008
  3. pmc Transcriptome analysis reveals strain-specific and conserved stemness genes in Schmidtea mediterranea
    Alissa M Resch
    Department of Genetics and Developmental Biology, Stem Cell Institute, Health Center, University of Connecticut, Farmington, Connecticut, United States of America
    PLoS ONE 7:e34447. 2012
    ....
  4. pmc Genomewide characterization of non-polyadenylated RNAs
    Li Yang
    Department of Genetics and Developmental Biology, University of Connecticut Stem Cell Institute, University of Connecticut Health Center, 263 Farmington Ave, Farmington, CT 06030 6403, USA
    Genome Biol 12:R16. 2011
    ..Current deep sequencing approaches largely depend on the enrichment of transcripts with a poly(A) tail, and therefore offer little insight into the nature and expression of transcripts that lack poly(A) tails...
  5. pmc Small molecule control of pre-mRNA splicing
    Brenton R Graveley
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, CT 06030, USA
    RNA 11:355-8. 2005
    ..These results provide a new approach to explore for regulating gene expression in vivo with small molecules by controlling pre-mRNA splicing...
  6. pmc Mutually exclusive splicing of the insect Dscam pre-mRNA directed by competing intronic RNA secondary structures
    Brenton R Graveley
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, Famington, CT 06030, USA
    Cell 123:65-73. 2005
    ....
  7. pmc The haplo-spliceo-transcriptome: common variations in alternative splicing in the human population
    Brenton R Graveley
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, Farmington, CT 06030 3301, USA
    Trends Genet 24:5-7. 2008
    ..This suggests that allele-specific alternative splicing is a mechanism that accounts for individual variation in the human population...
  8. pmc The developmental transcriptome of Drosophila melanogaster
    Brenton R Graveley
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, Connecticut 06030 6403, USA
    Nature 471:473-9. 2011
    ..These data substantially expand the number of known transcribed elements in the Drosophila genome and provide a high-resolution view of transcriptome dynamics throughout development...
  9. ncbi request reprint Sex, AGility, and the regulation of alternative splicing
    Brenton R Graveley
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington 06030, USA
    Cell 109:409-12. 2002
    ....
  10. ncbi request reprint Splicing up pluripotency
    Brenton R Graveley
    Department of Genetics and Developmental Biology, University of Connecticut Stem Cell Institute, University of Connecticut Health Center, Farmington, CT 06030, USA
    Cell 147:22-4. 2011
    ..It endows human embryonic stem cells with their pluripotent nature and is required for the reprogramming of somatic cells to induced pluripotent stem cells...
  11. pmc The organization and evolution of the dipteran and hymenopteran Down syndrome cell adhesion molecule (Dscam) genes
    Brenton R Graveley
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, CT 06030 3301, USA
    RNA 10:1499-506. 2004
    ..In addition, these findings suggest that the expression of a large Dscam repertoire is more important for the development and function of the insect nervous system than the actual sequence of each isoform...
  12. pmc The iStem, a long-range RNA secondary structure element required for efficient exon inclusion in the Drosophila Dscam pre-mRNA
    Jenny M Kreahling
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, CT 06030 3301, USA
    Mol Cell Biol 25:10251-60. 2005
    ..Thus, the iStem is a novel type of regulatory element that simultaneously controls the splicing of multiple alternative exons...
  13. pmc Using single-strand conformational polymorphism gel electrophoresis to analyze mutually exclusive alternative splicing
    Alicia M Celotto
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, Farmington, CT, USA
    Methods Mol Biol 257:65-74. 2004
    ..The ease and the quantitative nature of this technique should be very useful...
  14. pmc A computational and experimental approach toward a priori identification of alternatively spliced exons
    Dana L Philipps
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, CT 06030 3301, USA
    RNA 10:1838-44. 2004
    ..pseudoobscura. At least 40% of the exons that fit our prediction criteria are in fact alternatively spliced. Thus, comparative genomics can be used to accurately predict certain classes of alternative exons without relying on EST data...
  15. ncbi request reprint Getting in the loop: new insights into the mechanism of poly(a) site recognition
    Brenton R Graveley
    Department of Genetics and Developmental Biology, University of Connecticut Stem Cell Institute, University of Connecticut Health Center, 400 Farmington Avenue, Farmington, CT 06030, USA
    Structure 19:279-81. 2011
    ..In this issue, Yang et al. (2011) show that the 3' end processing factor CFI(m) interacts with RNA in manner that facilitates RNA looping, suggesting mechanistic roles for this factor in the regulation of poly(A) site selection...
  16. pmc Regulatory divergence in Drosophila revealed by mRNA-seq
    C Joel McManus
    Department of Genetics and Developmental Biology, University of Connecticut Stem Cell Institute, University of Connecticut Health Center, Farmington, Connecticut 06030, USA
    Genome Res 20:816-25. 2010
    ....
  17. pmc Use of RNA interference to dissect the roles of trans-acting factors in alternative pre-mRNA splicing
    Jung W Park
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, CT 06030 3301, USA
    Methods 37:341-4. 2005
    ..Here, we describe this RNAi approach to identify alternative splicing regulatory proteins in detail...
  18. pmc Exon-specific RNA interference: a tool to determine the functional relevance of proteins encoded by alternatively spliced mRNAs
    Alicia M Celotto
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, Farmington, USA
    Methods Mol Biol 309:273-82. 2005
  19. pmc Identification of alternative splicing regulators by RNA interference in Drosophila
    Jung W Park
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, CT 06030 3301, USA
    Proc Natl Acad Sci U S A 101:15974-9. 2004
    ..These results significantly expand the number of known splicing regulators and reveal an extraordinary richness in the mechanisms that regulate alternative splicing...
  20. pmc RNA interference of mRNA processing factors in Drosophila S2 cells
    Alicia M Celotto
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, Farmington, CT, USA
    Methods Mol Biol 257:245-54. 2004
    ..This approach can be extended to examine the splicing of nearly any gene...
  21. pmc Arginine/serine repeats are sufficient to constitute a splicing activation domain
    Dana Philipps
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, CT 06030 3301, USA
    Nucleic Acids Res 31:6502-8. 2003
    ..We also show that synthetic domains composed solely of RS dipeptides are capable of activating splicing, although their potency is proportional to their size...
  22. pmc Exon-specific RNAi: a tool for dissecting the functional relevance of alternative splicing
    Alicia M Celotto
    University of Connecticut Health Center, Department of Genetics and Developmental Biology, Farmington 06030 3301, USA
    RNA 8:718-24. 2002
    ..This technique may prove to be a powerful tool to assess the function of proteins synthesized from alternatively spliced mRNAs. In addition, these results have implications regarding the mechanism of RNAi in Drosophila...
  23. pmc Global analysis of trans-splicing in Drosophila
    C Joel McManus
    Department of Genetics and Developmental Biology, University of Connecticut Stem Cell Institute, University of Connecticut Health Center, Farmington, CT 06030 3301, USA
    Proc Natl Acad Sci U S A 107:12975-9. 2010
    ..Our results suggest that trans-splicing between homologous alleles occurs more commonly in Drosophila than previously believed and may facilitate expression of architecturally complex genes...
  24. ncbi request reprint The origins and implications of Aluternative splicing
    Jenny Kreahling
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, CT 06030 3301, USA
    Trends Genet 20:1-4. 2004
    ..These results provide new insights into the function and dangers of 'junk DNA' in the human genome...
  25. pmc Getting the message out
    C Joel McManus
    Department of Genetics and Developmental Biology, University of Connecticut Stem Cell Institute, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, CT 06030 3301, USA
    Mol Cell 31:4-6. 2008
    ....
  26. ncbi request reprint A protein interaction domain contacts RNA in the prespliceosome
    Brenton R Graveley
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, CT 06030 USA
    Mol Cell 13:302-4. 2004
    ..In this issue of Molecular Cell, demonstrate that the RS domain of SR proteins contacts the pre-mRNA branchpoint, indicating that these domains participate in both protein and RNA interactions...
  27. ncbi request reprint Complex alternative splicing
    Jung Woo Park
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, Farmington, CT 06030 3301, USA
    Adv Exp Med Biol 623:50-63. 2007
    ..In this review, we will describe several genes that use complex alternative splicing to generate large repertoires of mRNAs and what is known about the mechanisms by which they do so...
  28. pmc Deep sequencing identifies new and regulated microRNAs in Schmidtea mediterranea
    Yi Chien Lu
    Department of Genetics and Developmental Biology, University of Connecticut Stem Cell Institute, University of Connecticut Health Center, Farmington, Connecticut 06030 3301, USA
    RNA 15:1483-91. 2009
    ..Together, these results increase the known repertoire of S. mediterranea miRNAs and identify numerous regulated miRNAs that may play important roles in regeneration, homeostasis, neoblast function, and reproduction...
  29. pmc MicroRNAs from the Planarian Schmidtea mediterranea: a model system for stem cell biology
    Dasaradhi Palakodeti
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, Farmington, Connecticut 06030 3301, USA
    RNA 12:1640-9. 2006
    ..This work lays the foundation for functional studies aimed at addressing the role of these miRNAs in regeneration, cell lineage decisions, and basic stem cell biology...
  30. pmc Enhancer-dependent 5'-splice site control of fruitless pre-mRNA splicing
    Bianca J Lam
    Department of Microbiology and Molecular Genetics, College of Medicine, University of California, Irvine, California 92697 4025, USA
    J Biol Chem 278:22740-7. 2003
    ..These results suggest that exonic splicing enhancers recruit multiple spliceosomal components required for the initial recognition of 5'- and 3'-splice sites...
  31. ncbi request reprint RS domains contact the pre-mRNA throughout spliceosome assembly
    Klemens J Hertel
    Department of Microbiology and Molecular Genetics, College of Medicine, University of California, Irvine, CA 92697 4025, USA
    Trends Biochem Sci 30:115-8. 2005
    ..demonstrate that these RS domains directly contact the pre-mRNA within the functional spliceosome. The sequential character of these contacts suggests that RS domain interactions with RNA promote spliceosome assembly...
  32. pmc Structure and function of the PWI motif: a novel nucleic acid-binding domain that facilitates pre-mRNA processing
    Blair R Szymczyna
    Ontario Cancer Institute, University of Toronto, Toronto, Ontario, Canada M5G 2M9
    Genes Dev 17:461-75. 2003
    ..Thus, the PWI motif is a novel type of nucleic acid-binding domain that likely has multiple important functions in pre-mRNA processing, including SRm160-dependent stimulation of 3'-end formation...
  33. ncbi request reprint Analysis of the human neurexin genes: alternative splicing and the generation of protein diversity
    Lee Rowen
    Institute for Systems Biology, 1441 North 34th Street, Seattle, Washington 98103, USA
    Genomics 79:587-97. 2002
    ..The sequences of these genes provide insight into the mechanisms used to generate the diversity of neurexin protein isoforms and raise several interesting questions regarding the expression mechanism of large genes...
  34. pmc Coordinated control of splicing and translation
    Brenton R Graveley
    Nat Struct Mol Biol 12:1022-3. 2005
  35. 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
  36. pmc Characterization of U2AF(6), a splicing factor related to U2AF(35)
    Jeremiah Shepard
    Department of Biochemistry, University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA
    Mol Cell Biol 22:221-30. 2002
    ..Based on its sequence and functional similarity to U2AF(35), U2AF(26) may play a role in regulating alternative splicing...

Research Grants18

  1. The Mechanisms and Regulatory Networks of Alternative Splicing in Drosophila
    BRENTON GRAVELEY; Fiscal Year: 2009
    ....
  2. The Mechanisms and Regulatory Networks of Alternative Splicing in Drosophila
    BRENTON GRAVELEY; Fiscal Year: 2009
    ....
  3. The Mechanisms and Regulatory Networks of Alternative Splicing in Drosophila
    BRENTON GRAVELEY; Fiscal Year: 2007
    ....
  4. Alternative Splicing of the Drosophila DSCAM Pre-DRNA
    BRENTON GRAVELEY; Fiscal Year: 2007
    ....
  5. The Mechanisms and Regulatory Networks of Alternative Splicing in Drosophila
    BRENTON GRAVELEY; Fiscal Year: 2006
    ....
  6. Alternative Splicing of the Drosophila Dscam Pre-mRNA
    BRENTON GRAVELEY; Fiscal Year: 2006
    ....
  7. Alternative Splicing of the Drosophila Dscam Pre-mRNA
    BRENTON GRAVELEY; Fiscal Year: 2005
    ....
  8. Alternative Splicing of the Drosophila Dscam Pre-mRNA
    BRENTON GRAVELEY; Fiscal Year: 2003
    ....
  9. THE FUNCTION OF PRE-MRNA SPLICING ACTIVATORS
    BRENTON GRAVELEY; Fiscal Year: 2005
    ..In addition, at least 35 percent of human genes are alternatively spliced. Our results will increase our understanding of how this important means of gene regulation is controlled. ..
  10. Alternative Splicing of the Drosophila DSCAM Pre-DRNA
    Brenton R Graveley; Fiscal Year: 2010
    ....
  11. THE FUNCTION OF PRE-MRNA SPLICING ACTIVATORS
    BRENTON GRAVELEY; Fiscal Year: 2002
    ..In addition, at least 35 percent of human genes are alternatively spliced. Our results will increase our understanding of how this important means of gene regulation is controlled. ..
  12. Alternative Splicing of the Drosophila DSCAM Pre-DRNA
    BRENTON GRAVELEY; Fiscal Year: 2009
    ....
  13. THE FUNCTION OF PRE-MRNA SPLICING ACTIVATORS
    BRENTON GRAVELEY; Fiscal Year: 2003
    ..In addition, at least 35 percent of human genes are alternatively spliced. Our results will increase our understanding of how this important means of gene regulation is controlled. ..
  14. THE FUNCTION OF PRE-MRNA SPLICING ACTIVATORS
    BRENTON GRAVELEY; Fiscal Year: 2004
    ..In addition, at least 35 percent of human genes are alternatively spliced. Our results will increase our understanding of how this important means of gene regulation is controlled. ..
  15. Alternative Splicing of the Drosophila Dscam Pre-mRNA
    BRENTON GRAVELEY; Fiscal Year: 2004
    ....
  16. THE FUNCTION OF PRE-MRNA SPLICING ACTIVATORS
    BRENTON GRAVELEY; Fiscal Year: 2001
    ..In addition, at least 35 percent of human genes are alternatively spliced. Our results will increase our understanding of how this important means of gene regulation is controlled. ..