Research Topics
Genomes and Genes | BRENTON GRAVELEYSummaryAffiliation: University of Connecticut Health Center Country: USA Publications
Research Grants
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Detail Information
Publications
Splicing from the outside inLi 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...
Molecular biology: power sequencingBrenton R Graveley
Nature 453:1197-8. 2008- Genomewide characterization of non-polyadenylated RNAsLi 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... - Splicing up pluripotencyBrenton 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... - The developmental transcriptome of Drosophila melanogasterBrenton 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... - The haplo-spliceo-transcriptome: common variations in alternative splicing in the human populationBrenton 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... - Mutually exclusive splicing of the insect Dscam pre-mRNA directed by competing intronic RNA secondary structuresBrenton R Graveley
Department of Genetics and Developmental Biology, University of Connecticut Health Center, Famington, CT 06030, USA
Cell 123:65-73. 2005.... - Small molecule control of pre-mRNA splicingBrenton 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... - The organization and evolution of the dipteran and hymenopteran Down syndrome cell adhesion molecule (Dscam) genesBrenton 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... - Sex, AGility, and the regulation of alternative splicingBrenton R Graveley
Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington 06030, USA
Cell 109:409-12. 2002.... - The iStem, a long-range RNA secondary structure element required for efficient exon inclusion in the Drosophila Dscam pre-mRNAJenny 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... - Using single-strand conformational polymorphism gel electrophoresis to analyze mutually exclusive alternative splicingAlicia 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... - A computational and experimental approach toward a priori identification of alternatively spliced exonsDana 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... - Getting in the loop: new insights into the mechanism of poly(a) site recognitionBrenton 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... - Regulatory divergence in Drosophila revealed by mRNA-seqC 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.... - Identification of alternative splicing regulators by RNA interference in DrosophilaJung 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... - Exon-specific RNA interference: a tool to determine the functional relevance of proteins encoded by alternatively spliced mRNAsAlicia M Celotto
Department of Genetics and Developmental Biology, University of Connecticut Health Center, Farmington, USA
Methods Mol Biol 309:273-82. 2005 - Use of RNA interference to dissect the roles of trans-acting factors in alternative pre-mRNA splicingJung 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... - RNA interference of mRNA processing factors in Drosophila S2 cellsAlicia 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... - Exon-specific RNAi: a tool for dissecting the functional relevance of alternative splicingAlicia 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... - The origins and implications of Aluternative splicingJenny 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... - Global analysis of trans-splicing in DrosophilaC 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... - Arginine/serine repeats are sufficient to constitute a splicing activation domainDana 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... - A protein interaction domain contacts RNA in the prespliceosomeBrenton 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... - Getting the message outC 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.... - Complex alternative splicingJung 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... - MicroRNAs from the Planarian Schmidtea mediterranea: a model system for stem cell biologyDasaradhi 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... - Deep sequencing identifies new and regulated microRNAs in Schmidtea mediterraneaYi 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... - Enhancer-dependent 5'-splice site control of fruitless pre-mRNA splicingBianca 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... - RS domains contact the pre-mRNA throughout spliceosome assemblyKlemens 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... - Structure and function of the PWI motif: a novel nucleic acid-binding domain that facilitates pre-mRNA processingBlair 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... - Analysis of the human neurexin genes: alternative splicing and the generation of protein diversityLee 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... 
Splicing bioinformatics to biologyDouglas 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- Coordinated control of splicing and translationBrenton R Graveley
Nat Struct Mol Biol 12:1022-3. 2005 - 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 Grants
- Alternative Splicing of the Drosophila DSCAM Pre-DRNABrenton R Graveley; Fiscal Year: 2010....
- The Mechanisms and Regulatory Networks of Alternative Splicing in DrosophilaBRENTON GRAVELEY; Fiscal Year: 2009....
- Alternative Splicing of the Drosophila DSCAM Pre-DRNABRENTON GRAVELEY; Fiscal Year: 2007....
- Alternative Splicing of the Drosophila Dscam Pre-mRNABRENTON GRAVELEY; Fiscal Year: 2006....
- THE FUNCTION OF PRE-MRNA SPLICING ACTIVATORSBRENTON 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. ..
- The Mechanisms and Regulatory Networks of Alternative Splicing in DrosophilaBRENTON GRAVELEY; Fiscal Year: 2009....