alternative splicing

Summary

Summary: A process whereby multiple RNA transcripts are generated from a single gene. Alternative splicing involves the splicing together of other possible sets of EXONS during the processing of some, but not all, transcripts of the gene. Thus a particular exon may be connected to any one of several alternative exons to form a mature RNA. The alternative forms of mature MESSENGER RNA produce PROTEIN ISOFORMS in which one part of the isoforms is common while the other parts are different.

Top Publications

  1. doi Mapping and quantifying mammalian transcriptomes by RNA-Seq
    Ali Mortazavi
    Division of Biology, MC 156 29, California Institute of Technology, Pasadena, California 91125, USA
    Nat Methods 5:621-8. 2008
  2. 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
  3. 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
  4. pmc Transcriptome genetics using second generation sequencing in a Caucasian population
    Stephen B Montgomery
    Department of Genetic Medicine and Development, University of Geneva Medical School, Geneva, 1211 Switzerland
    Nature 464:773-7. 2010
  5. pmc Epigenetics in alternative pre-mRNA splicing
    Reini F Luco
    National Cancer Institute, National Institutes of Health, Bethesda, MD 20892, USA
    Cell 144:16-26. 2011
  6. doi The nuclear-retained noncoding RNA MALAT1 regulates alternative splicing by modulating SR splicing factor phosphorylation
    Vidisha Tripathi
    Department of Cell and Developmental Biology, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Mol Cell 39:925-38. 2010
  7. doi CTCF-promoted RNA polymerase II pausing links DNA methylation to splicing
    Sanjeev Shukla
    Center for Cancer Research, Mouse Cancer Genetics Program, National Cancer Institute at Frederick, Frederick, Maryland 21702, USA
    Nature 479:74-9. 2011
  8. pmc Genome-wide mapping of alternative splicing in Arabidopsis thaliana
    Sergei A Filichkin
    Department of Botany and Plant Pathology and Center for Genome Research and Biocomputing, Oregon State University, Corvallis, Oregon 97331, USA
    Genome Res 20:45-58. 2010
  9. 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
  10. pmc RNA and disease
    Thomas A Cooper
    Department of Pathology, Baylor College of Medicine, Houston, TX 77030, USA
    Cell 136:777-93. 2009

Detail Information

Publications350 found, 100 shown here

  1. doi Mapping and quantifying mammalian transcriptomes by RNA-Seq
    Ali Mortazavi
    Division of Biology, MC 156 29, California Institute of Technology, Pasadena, California 91125, USA
    Nat Methods 5:621-8. 2008
    ..We observed 1.45 x 10(5) distinct splices, and alternative splices were prominent, with 3,500 different genes expressing one or more alternate internal splices...
  2. 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 ..
  3. 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
    ..in which sequence reads are mapped to exon-exon junctions indicated that 92-94% of human genes undergo alternative splicing, 86% with a minor isoform frequency of 15% or more...
  4. pmc Transcriptome genetics using second generation sequencing in a Caucasian population
    Stephen B Montgomery
    Department of Genetic Medicine and Development, University of Geneva Medical School, Geneva, 1211 Switzerland
    Nature 464:773-7. 2010
    ..number of variants that influence the structure of mature transcripts indicating variants responsible for alternative splicing. Finally, measures of allele-specific expression allowed the identification of rare eQTLs and allelic ..
  5. pmc Epigenetics in alternative pre-mRNA splicing
    Reini F Luco
    National Cancer Institute, National Institutes of Health, Bethesda, MD 20892, USA
    Cell 144:16-26. 2011
    b>Alternative splicing plays critical roles in differentiation, development, and disease and is a major source for protein diversity in higher eukaryotes...
  6. doi The nuclear-retained noncoding RNA MALAT1 regulates alternative splicing by modulating SR splicing factor phosphorylation
    Vidisha Tripathi
    Department of Cell and Developmental Biology, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Mol Cell 39:925-38. 2010
    b>Alternative splicing (AS) of pre-mRNA is utilized by higher eukaryotes to achieve increased transcriptome and proteomic complexity...
  7. doi CTCF-promoted RNA polymerase II pausing links DNA methylation to splicing
    Sanjeev Shukla
    Center for Cancer Research, Mouse Cancer Genetics Program, National Cancer Institute at Frederick, Frederick, Maryland 21702, USA
    Nature 479:74-9. 2011
    b>Alternative splicing of pre-messenger RNA is a key feature of transcriptome expansion in eukaryotic cells, yet its regulation is poorly understood...
  8. pmc Genome-wide mapping of alternative splicing in Arabidopsis thaliana
    Sergei A Filichkin
    Department of Botany and Plant Pathology and Center for Genome Research and Biocomputing, Oregon State University, Corvallis, Oregon 97331, USA
    Genome Res 20:45-58. 2010
    b>Alternative splicing can enhance transcriptome plasticity and proteome diversity...
  9. 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
    ..footprints confirming the previous prediction that the position of Nova binding determines the outcome of alternative splicing; moreover, they are sufficiently powerful to predict Nova action de novo...
  10. pmc RNA and disease
    Thomas A Cooper
    Department of Pathology, Baylor College of Medicine, Houston, TX 77030, USA
    Cell 136:777-93. 2009
    ..b>Alternative splicing provides cells with an exquisite capacity to fine-tune their transcriptome and proteome in response to cues...
  11. pmc Functional consequences of developmentally regulated alternative splicing
    Auinash Kalsotra
    Department of Pathology and Immunology, Baylor College of Medicine, Houston, Texas 77030, USA
    Nat Rev Genet 12:715-29. 2011
    ..of metazoan transcriptomes have revealed an unexpected level of mRNA diversity that is generated by alternative splicing. Recently, regulatory networks have been identified through which splicing promotes dynamic remodelling of ..
  12. doi The M2 splice isoform of pyruvate kinase is important for cancer metabolism and tumour growth
    Heather R Christofk
    Department of Systems Biology, Harvard Medical School, Boston, Massachusetts 02115, USA
    Nature 452:230-3. 2008
    ..These results demonstrate that M2 expression is necessary for aerobic glycolysis and that this metabolic phenotype provides a selective growth advantage for tumour cells in vivo...
  13. pmc Analysis and design of RNA sequencing experiments for identifying isoform regulation
    Yarden Katz
    Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology MIT, Cambridge, Massachusetts, USA
    Nat Methods 7:1009-15. 2010
    Through alternative splicing, most human genes express multiple isoforms that often differ in function...
  14. pmc Regulation of alternative splicing by histone modifications
    Reini F Luco
    National Cancer Institute, National Institutes of Health, Bethesda, MD 20892, USA
    Science 327:996-1000. 2010
    b>Alternative splicing of pre-mRNA is a prominent mechanism to generate protein diversity, yet its regulation is poorly understood. We demonstrated a direct role for histone modifications in alternative splicing...
  15. pmc Characterizing the RNA targets and position-dependent splicing regulation by TDP-43
    James R Tollervey
    Medical Research Council MRC Laboratory of Molecular Biology, Cambridge, UK
    Nat Neurosci 14:452-8. 2011
    ..We also found that binding of TDP-43 to pre-mRNAs influenced alternative splicing in a similar position-dependent manner to Nova proteins...
  16. doi Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing
    Qun Pan
    Banting and Best Department of Medical Research, University of Toronto, Toronto, Canada
    Nat Genet 40:1413-5. 2008
    We carried out the first analysis of alternative splicing complexity in human tissues using mRNA-Seq data. New splice junctions were detected in approximately 20% of multiexon genes, many of which are tissue specific...
  17. doi Deciphering the splicing code
    Yoseph Barash
    Biomedical Engineering, Department of Electrical and Computer Engineering, University of Toronto, 10 King s College Road, Toronto M5S 3G4, Canada
    Nature 465:53-9. 2010
    b>Alternative splicing has a crucial role in the generation of biological complexity, and its misregulation is often involved in human disease...
  18. pmc The MicroRNA miR-124 promotes neuronal differentiation by triggering brain-specific alternative pre-mRNA splicing
    Eugene V Makeyev
    Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA 02138, USA
    Mol Cell 27:435-48. 2007
    ..These events culminate in the transition from non-NS to NS-specific alternative splicing patterns...
  19. pmc Mechanisms of alternative splicing regulation: insights from molecular and genomics approaches
    Mo Chen
    Department of Biological Sciences, Columbia University, New York, New York 10027, USA
    Nat Rev Mol Cell Biol 10:741-54. 2009
    b>Alternative splicing of mRNA precursors provides an important means of genetic control and is a crucial step in the expression of most genes...
  20. pmc Regulated functional alternative splicing in Drosophila
    Julian P Venables
    Universite Montpellier 2, UMR 5535, Institut de Genetique Moleculaire de Montpellier, CNRS, 1919 Route de Mende, 34293 Montpellier Cedex 05, France
    Nucleic Acids Res 40:1-10. 2012
    b>Alternative splicing expands the coding capacity of metazoan genes, and it was largely genetic studies in the fruit-fly Drosophila melanogaster that established the principle that regulated alternative splicing results in tissue- and ..
  21. ncbi Splicing in disease: disruption of the splicing code and the decoding machinery
    Guey Shin Wang
    Department of Pathology, Baylor College of Medicine, Houston, Texas 77030, USA
    Nat Rev Genet 8:749-61. 2007
    ..b>Alternative splicing generates a highly dynamic human proteome through networks of coordinated splicing events...
  22. ncbi Association of missense and 5'-splice-site mutations in tau with the inherited dementia FTDP-17
    M Hutton
    Mayo Clinic Jacksonville, Florida 32224, USA
    Nature 393:702-5. 1998
    ..mutations all destabilize a potential stem-loop structure which is probably involved in regulating the alternative splicing of exon10...
  23. pmc Widespread shortening of 3'UTRs by alternative cleavage and polyadenylation activates oncogenes in cancer cells
    Christine Mayr
    Howard Hughes Medical Institute, USA
    Cell 138:673-84. 2009
    ..The high incidence of APA in cancer cells, with consequent loss of 3'UTR repressive elements, suggests a pervasive role for APA in oncogene activation without genetic alteration...
  24. pmc Alternative pre-mRNA splicing regulation in cancer: pathways and programs unhinged
    Charles J David
    Department of Biological Sciences, Columbia University, New York, New York 10027, USA
    Genes Dev 24:2343-64. 2010
    b>Alternative splicing of mRNA precursors is a nearly ubiquitous and extremely flexible point of gene control in humans...
  25. pmc Sex-specific and lineage-specific alternative splicing in primates
    Ran Blekhman
    Department of Human Genetics, University of Chicago, Chicago, Illinois 60637, USA
    Genome Res 20:180-9. 2010
    ..Our data also suggest that while alternative splicing is tightly regulated within and between species, sex-specific and lineage-specific changes in the ..
  26. doi A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome
    Marc Sultan
    Department of Vertebrate Genomics, Max Planck Institute for Molecular Genetics, Ihnestrasse 73, 14195 Berlin, Germany
    Science 321:956-60. 2008
    ..A global survey of messenger RNA splicing events identified 94,241 splice junctions (4096 of which were previously unidentified) and showed that exon skipping is the most prevalent form of alternative splicing.
  27. ncbi Absolute quantification of mRNA using real-time reverse transcription polymerase chain reaction assays
    S A Bustin
    Academic Department of Surgery, St Bartholomew s and the Royal London School of Medicine and Dentistry, Queen Mary and Westfield College, London E1 1BB, UK
    J Mol Endocrinol 25:169-93. 2000
    ..It illustrates the usefulness of these assays by demonstrating the significantly different levels of transcription between individuals of the housekeeping gene family, glyceraldehyde-3-phosphate-dehydrogenase (GAPDH)...
  28. pmc RNA processing and its regulation: global insights into biological networks
    Donny D Licatalosi
    Howard Hughes Medical Institute, Laboratory of Molecular Neuro Oncology, The Rockefeller University, New York, New York 10021, USA
    Nat Rev Genet 11:75-87. 2010
    ..are revealing increasingly complete descriptions of RNA regulation and complexity; for example, through alternative splicing, alternative polyadenylation and RNA editing...
  29. pmc MapSplice: accurate mapping of RNA-seq reads for splice junction discovery
    Kai Wang
    Department of Computer Science, University of Kentucky, Lexington, KY 40506, USA
    Nucleic Acids Res 38:e178. 2010
    ..Splice junctions derived from eight breast cancer RNA-seq datasets recapitulated the extensiveness of alternative splicing on a global level as well as the differences between molecular subtypes of breast cancer...
  30. pmc An alternative splicing network links cell-cycle control to apoptosis
    Michael J Moore
    Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA
    Cell 142:625-36. 2010
    b>Alternative splicing is a vast source of biological regulation and diversity that is misregulated in cancer and other diseases...
  31. pmc Integrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins
    Stephanie C Huelga
    Department of Cellular and Molecular Medicine, University of California at San Diego, La Jolla, CA 92093, USA
    Cell Rep 1:167-78. 2012
    ..Our findings define an unprecedented degree of complexity and compensatory relationships among hnRNP proteins and their splicing targets that likely confer robustness to cells...
  32. pmc Genome-wide analysis of PTB-RNA interactions reveals a strategy used by the general splicing repressor to modulate exon inclusion or skipping
    Yuanchao Xue
    Wuhan University, Hubei, China
    Mol Cell 36:996-1006. 2009
    Recent transcriptome analysis indicates that > 90% of human genes undergo alternative splicing, underscoring the contribution of differential RNA processing to diverse proteomes in higher eukaryotic cells...
  33. doi Alternative splicing and evolution: diversification, exon definition and function
    Hadas Keren
    Department of Human Molecular Genetics and Biochemistry, Sackler Faculty of Medicine, Tel Aviv University, Ramat Aviv 69978, Israel
    Nat Rev Genet 11:345-55. 2010
    Over the past decade, it has been shown that alternative splicing (AS) is a major mechanism for the enhancement of transcriptome and proteome diversity, particularly in mammals...
  34. pmc An ESRP-regulated splicing programme is abrogated during the epithelial-mesenchymal transition
    Claude C Warzecha
    Renal Division, Department of Medicine, University of Pennsylvania School of Medicine, Philadelphia, PA, USA
    EMBO J 29:3286-300. 2010
    b>Alternative splicing achieves coordinated changes in post-transcriptional gene expression programmes through the activities of diverse RNA-binding proteins...
  35. pmc Statistical significance for genomewide studies
    John D Storey
    Department of Biostatistics, University of Washington, Seattle, WA 98195, USA
    Proc Natl Acad Sci U S A 100:9440-5. 2003
    ..Our approach avoids a flood of false positive results, while offering a more liberal criterion than what has been used in genome scans for linkage...
  36. pmc Prediction of alternative isoforms from exon expression levels in RNA-Seq experiments
    Hugues Richard
    Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Ihnestr 73, 14195 Berlin, Germany
    Nucleic Acids Res 38:e112. 2010
    b>Alternative splicing, polyadenylation of pre-messenger RNA molecules and differential promoter usage can produce a variety of transcript isoforms whose respective expression levels are regulated in time and space, thus contributing ..
  37. doi An alternative splicing switch regulates embryonic stem cell pluripotency and reprogramming
    Mathieu Gabut
    Banting and Best Department of Medical Research, University of Toronto, 160 College Street, Toronto, Ontario M5S 3E1, Canada
    Cell 147:132-46. 2011
    b>Alternative splicing (AS) is a key process underlying the expansion of proteomic diversity and the regulation of gene expression...
  38. pmc Spliced leader trapping reveals widespread alternative splicing patterns in the highly dynamic transcriptome of Trypanosoma brucei
    Daniel Nilsson
    Institute of Cell Biology, University of Bern, Bern, Switzerland
    PLoS Pathog 6:e1001037. 2010
    ..Furthermore, we discovered more than 2500 alternative splicing events, many of which appear to be stage-regulated...
  39. doi Genome-wide analysis of transcript isoform variation in humans
    Tony Kwan
    Department of Human Genetics, McGill University, 740 Dr Penfield, Room 7210, Montreal, Quebec H3A 1A4, Canada
    Nat Genet 40:225-31. 2008
    ..This extra layer of molecular diversity may account for natural phenotypic variation and disease susceptibility...
  40. doi Genome-wide analyses of alternative splicing in plants: opportunities and challenges
    W Brad Barbazuk
    Donald Danforth Plant Science Center, St Louis, Missouri 63132, USA
    Genome Res 18:1381-92. 2008
    b>Alternative splicing (AS) creates multiple mRNA transcripts from a single gene. While AS is known to contribute to gene regulation and proteome diversity in animals, the study of its importance in plants is in its early stages...
  41. pmc Position-dependent alternative splicing activity revealed by global profiling of alternative splicing events regulated by PTB
    Miriam Llorian
    Department of Biochemistry, University of Cambridge, Cambridge, UK
    Nat Struct Mol Biol 17:1114-23. 2010
    ..Our results show that PTB, an archetypal splicing repressor, has variable splicing activity that predictably depends upon its binding location with respect to target exons...
  42. pmc Nucleosomes are well positioned in exons and carry characteristic histone modifications
    Robin Andersson
    The Linnaeus Centre for Bioinformatics, Uppsala University, Sweden
    Genome Res 19:1732-41. 2009
    ..Thus, exons are not only characterized by their coding capacity, but also by their nucleosome organization, which seems evolutionarily conserved since it is present in both primates and nematodes...
  43. pmc Transcriptome survey reveals increased complexity of the alternative splicing landscape in Arabidopsis
    Yamile Márquez
    Max F Perutz Laboratories, Medical University of Vienna, Vienna, Austria
    Genome Res 22:1184-95. 2012
    b>Alternative splicing (AS) is a key regulatory mechanism that contributes to transcriptome and proteome diversity...
  44. pmc iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution
    Julian König
    Medical Research Council Laboratory of Molecular Biology, Cambridge, UK
    Nat Struct Mol Biol 17:909-15. 2010
    ..Integration of transcriptome-wide iCLIP data and alternative splicing profiles into an 'RNA map' indicates how the positioning of hnRNP particles determines their effect on the ..
  45. ncbi Characterization and functional implications of the RNA binding properties of nuclear factor TDP-43, a novel splicing regulator of CFTR exon 9
    E Buratti
    International Center for Genetic Engineering and Biotechnology ICGEB 34012 Trieste, Italy
    J Biol Chem 276:36337-43. 2001
    ..In particular, the highly conserved Phe residues in the first RRM region play a key role in nucleic acid recognition...
  46. pmc Detection of splice junctions from paired-end RNA-seq data by SpliceMap
    Kin Fai Au
    Department of Statistics, Stanford University, Stanford, CA 94305, USA
    Nucleic Acids Res 38:4570-8. 2010
    b>Alternative splicing is a prevalent post-transcriptional process, which is not only important to normal cellular function but is also involved in human diseases...
  47. pmc Integrative modeling defines the Nova splicing-regulatory network and its combinatorial controls
    Chaolin Zhang
    Laboratory of Molecular Neuro Oncology, Howard Hughes Medical Institute, The Rockefeller University, 1230 York Avenue, New York, NY 10021, USA
    Science 329:439-43. 2010
    The control of RNA alternative splicing is critical for generating biological diversity. Despite emerging genome-wide technologies to study RNA complexity, reliable and comprehensive RNA-regulatory networks have not been defined...
  48. pmc HnRNP proteins controlled by c-Myc deregulate pyruvate kinase mRNA splicing in cancer
    Charles J David
    Department of Biological Sciences, Columbia University, New York, New York 10027, USA
    Nature 463:364-8. 2010
    ..These two isoforms result from mutually exclusive alternative splicing of the PKM pre-mRNA, reflecting inclusion of either exon 9 (PKM1) or exon 10 (PKM2)...
  49. 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...
  50. doi Alternative expression analysis by RNA sequencing
    Malachi Griffith
    Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, Canada
    Nat Methods 7:843-7. 2010
    ..Alternative expression annotation databases, source code, a data viewer and other resources to facilitate analysis are available at http://www.alexaplatform.org/alexa_seq/...
  51. doi 17A, a novel non-coding RNA, regulates GABA B alternative splicing and signaling in response to inflammatory stimuli and in Alzheimer disease
    Sara Massone
    Oncology Biology and Genetics Department DOBiG, University of Genoa, Genoa, Italy
    Neurobiol Dis 41:308-17. 2011
    b>Alternative splicing is a central component of human brain complexity; nonetheless, its regulatory mechanisms are still largely unclear...
  52. pmc Degrade, move, regroup: signaling control of splicing proteins
    Florian Heyd
    Department of Biochemistry and Biophysics, University of Pennsylvania School of Medicine, Philadelphia, PA 19104 6059, USA
    Trends Biochem Sci 36:397-404. 2011
    ..Recent studies now suggest notable trends in the mechanisms that link cellular stimuli to downstream alternative splicing events...
  53. pmc Alternative splicing and nonsense-mediated decay modulate expression of important regulatory genes in Arabidopsis
    Maria Kalyna
    Max F Perutz Laboratories, Medical University of Vienna, Dr Bohr Gasse 9 3, A 1030 Vienna, Austria
    Nucleic Acids Res 40:2454-69. 2012
    b>Alternative splicing (AS) coupled to nonsense-mediated decay (NMD) is a post-transcriptional mechanism for regulating gene expression...
  54. doi Two splice variants of the IDD14 transcription factor competitively form nonfunctional heterodimers which may regulate starch metabolism
    Pil Joon Seo
    Department of Chemistry, Seoul National University, Seoul 151 742, Korea
    Nat Commun 2:303. 2011
    b>Alternative splicing of primary gene transcripts provides eukaryotic cells, with a critical scheme for enriching transcriptome and proteome diversity...
  55. pmc Comparison of transcriptomic landscapes of bovine embryos using RNA-Seq
    Wen Huang
    Department of Dairy Science, University of Wisconsin, Madison, WI 53706, USA
    BMC Genomics 11:711. 2010
    ..Although RNA-seq has been demonstrated in many organisms, no study has provided a comprehensive investigation of the bovine transcriptome using RNA-seq...
  56. 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
    From a large-scale screen using splicing microarrays and RT-PCR, we identified 63 alternative splicing (AS) events that are coordinated in 3 distinct temporal patterns during mouse heart development...
  57. pmc Neuronal cell depolarization induces intragenic chromatin modifications affecting NCAM alternative splicing
    Ignacio E Schor
    Departamento de Fisiologia, Biologia Molecular y Celular, IFIBYNE UBA Consejo Nacional de Investigaciones Científicas y Técnicas of Argentina, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Argentina
    Proc Natl Acad Sci U S A 106:4325-30. 2009
    In search for physiological pathways affecting alternative splicing through its kinetic coupling with transcription, we found that membrane depolarization of neuronal cells triggers the skipping of exon 18 from the neural cell adhesion ..
  58. pmc AltAnalyze and DomainGraph: analyzing and visualizing exon expression data
    Dorothea Emig
    Max Planck Institute for Informatics, 66123 Saarbrucken, Germany
    Nucleic Acids Res 38:W755-62. 2010
    b>Alternative splicing is an important mechanism for increasing protein diversity. However, its functional effects are largely unknown...
  59. pmc Aberrant alternative splicing and extracellular matrix gene expression in mouse models of myotonic dystrophy
    Hongqing Du
    RNA Center, Department of Molecular, Cell and Developmental Biology, Sinsheimer Labs, University of California, Santa Cruz, California, USA
    Nat Struct Mol Biol 17:187-93. 2010
    ..These findings reveal unanticipated similarities between DM1 and other muscular dystrophies...
  60. pmc Functional and evolutionary insights into human brain development through global transcriptome analysis
    Matthew B Johnson
    Department of Neurobiology and Kavli Institute for Neuroscience, Yale University School of Medicine, New Haven, CT 06520, USA
    Neuron 62:494-509. 2009
    ..These data reveal a large number of specific gene expression and alternative splicing patterns, as well as coexpression networks, associated with distinct regions and neurodevelopmental ..
  61. ncbi Inactivation of the SR protein splicing factor ASF/SF2 results in genomic instability
    Xialu Li
    Department of Biological Sciences, Columbia University, New York, New York 10027, USA
    Cell 122:365-78. 2005
    ..Our results support a model by which recruitment of ASF/SF2 to nascent transcripts by RNA polymerase II prevents formation of mutagenic R loop structures...
  62. pmc Genome-wide analysis of alternative splicing in Caenorhabditis elegans
    Arun K Ramani
    Banting and Best Department of Medical Research, Donnelly Centre, University of Toronto, Ontario M5S 3E1, Canada
    Genome Res 21:342-8. 2011
    b>Alternative splicing (AS) plays a crucial role in the diversification of gene function and regulation...
  63. pmc ESRP1 and ESRP2 are epithelial cell-type-specific regulators of FGFR2 splicing
    Claude C Warzecha
    Department of Medicine, Renal Division, University of Pennsylvania School of Medicine, Philadelphia, PA 19104, USA
    Mol Cell 33:591-601. 2009
    ..These studies suggest that Epithelial Splicing Regulatory Proteins 1 and 2 (ESRP1 and ESRP2) are coordinators of an epithelial cell-type-specific splicing program...
  64. doi A methyl transferase links the circadian clock to the regulation of alternative splicing
    Sabrina E Sanchez
    IFEVA, Facultad de Agronomia, UBA CONICET, C1417DSE Buenos Aires, Argentina
    Nature 468:112-6. 2010
    ..residues present in histones and Sm spliceosomal proteins, links the circadian clock to the control of alternative splicing in plants...
  65. pmc The splicing regulator Rbfox1 (A2BP1) controls neuronal excitation in the mammalian brain
    Lauren T Gehman
    Molecular Biology Institute, University of California, Los Angeles, Los Angeles, California, USA
    Nat Genet 43:706-11. 2011
    The Rbfox family of RNA binding proteins regulates alternative splicing of many important neuronal transcripts, but its role in neuronal physiology is not clear...
  66. doi Alternative splicing: global insights
    Martina Hallegger
    Department of Biochemistry, University of Cambridge, UK
    FEBS J 277:856-66. 2010
    ..splicing in 1977, it was quickly realized that splicing together of different combinations of splice sites--alternative splicing--allows individual genes to generate more than one mRNA isoform...
  67. pmc Genome-wide identification of alternative splice forms down-regulated by nonsense-mediated mRNA decay in Drosophila
    Kasper Daniel Hansen
    Division of Biostatistics, School of Public Health, University of California Berkeley, Berkeley, CA, USA
    PLoS Genet 5:e1000525. 2009
    ..Not all alternative splicing results in functional protein; it can also yield mRNA isoforms with premature stop codons that are degraded ..
  68. doi Polypyrimidine tract-binding protein homologues from Arabidopsis underlie regulatory circuits based on alternative splicing and downstream control
    Eva Stauffer
    Center for Plant Molecular Biology ZMBP, University of Tubingen, Auf der Morgenstelle 28, Tubingen, Germany
    Plant J 64:243-55. 2010
    b>Alternative splicing (AS) of precursor mRNAs is a widespread phenomenon in plants; however, many questions, especially regarding its regulation and functional implications, remain to be elucidated...
  69. pmc Epigenetic features are significantly associated with alternative splicing
    Yuanpeng Zhou
    State Key Laboratory of Genetic Engineering, Institute of Biostatistics, School of Life Science, Fudan University, Shanghai, China
    BMC Genomics 13:123. 2012
    While alternative splicing (AS) contributes greatly to protein diversities, the relationship between various types of AS and epigenetic factors remains largely unknown.
  70. doi Alternative splicing and disease
    Jamal Tazi
    University of Montpellier II, Institute of Molecular Genetics, Centre Nationale de Recherche Scientifique, 1919 Route de Mende, France
    Biochim Biophys Acta 1792:14-26. 2009
    Almost all protein-coding genes are spliced and their majority is alternatively spliced. Alternative splicing is a key element in eukaryotic gene expression that increases the coding capacity of the human genome and an increasing number ..
  71. doi More than a splicing code: integrating the role of RNA, chromatin and non-coding RNA in alternative splicing regulation
    Reini F Luco
    National Cancer Institute, NIH, Bethesda, MD 20892, USA
    Curr Opin Genet Dev 21:366-72. 2011
    Large portions of the genome undergo alternative pre-mRNA splicing in often intricate patterns. Alternative splicing regulation requires extensive control mechanisms since errors can have deleterious consequences and may lead to ..
  72. pmc The epithelial splicing factors ESRP1 and ESRP2 positively and negatively regulate diverse types of alternative splicing events
    Claude C Warzecha
    Renal Division, Department of Medicine, University of Pennsylvania School of Medicine, Philadelphia, PA, USA
    RNA Biol 6:546-62. 2009
    Cell-type and tissue-specific alternative splicing events are regulated by combinatorial control involving both abundant RNA binding proteins as well as those with more discrete expression and specialized functions...
  73. ncbi A slow RNA polymerase II affects alternative splicing in vivo
    Manuel De la Mata
    Laboratorio de Fisiologia y Biologia Molecular, Departamento de Fisiologia, Biologia Molecular y Celular, IFIBYNE CONICET, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Ciudad Universitaria, Pabellon 2, Buenos Aires, Argentina
    Mol Cell 12:525-32. 2003
    ..been shown to modify the splicing pattern of several genes, evidencing a coupling between transcription and alternative splicing. It has been proposed that the promoter effect involves modulation of RNA pol II elongation rates...
  74. pmc Sam68 regulates EMT through alternative splicing-activated nonsense-mediated mRNA decay of the SF2/ASF proto-oncogene
    Cristina Valacca
    Istituto di Genetica Molecolare, Consiglio Nazionale delle Ricerche IGM CNR, 27100 Pavia, Italy
    J Cell Biol 191:87-99. 2010
    ..Using an in vitro model, we now show that SF2/ASF is also regulated during EMT/MET by alternative splicing associated with the nonsense-mediated mRNA decay pathway (AS-NMD)...
  75. pmc The snoRNA MBII-52 (SNORD 115) is processed into smaller RNAs and regulates alternative splicing
    Shivendra Kishore
    Department of Molecular and Cellular Biochemistry, University of Kentucky, Lexington, KY 40536, USA
    Hum Mol Genet 19:1153-64. 2010
    ..We recently found that the C/D box snoRNA HBII-52 changes the alternative splicing of the serotonin receptor 2C pre-mRNA, which is different from the traditional C/D box snoRNA function in ..
  76. pmc The vertebrate genome annotation (Vega) database
    L G Wilming
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, CB10 1SA, UK
    Nucleic Acids Res 36:D753-60. 2008
    ..In addition, we offer manual annotation of a number of haplotype regions in mouse and human and regions of comparative interest in pig and dog that are unique to Vega...
  77. 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
    The MBNL and CELF proteins act antagonistically to control the alternative splicing of specific exons during mammalian postnatal development...
  78. ncbi Aberrant regulation of insulin receptor alternative splicing is associated with insulin resistance in myotonic dystrophy
    R S Savkur
    Department of Pathology, Baylor College of Medicine, One Baylor Plaza, Houston, Texas, USA
    Nat Genet 29:40-7. 2001
    ..Here we demonstrate that alternative splicing of the insulin receptor (IR) pre-mRNA is aberrantly regulated in DM1 skeletal muscle tissue, resulting in ..
  79. pmc CD44 splice isoform switching in human and mouse epithelium is essential for epithelial-mesenchymal transition and breast cancer progression
    Rhonda L Brown
    Department of Medicine, Division of Hematology Oncology, Robert H Lurie Comprehensive Cancer Center, Feinberg School of Medicine, Northwestern University, Chicago, Illinois 60614, USA
    J Clin Invest 121:1064-74. 2011
    ..Here we show that a switch in CD44 alternative splicing is required for EMT...
  80. ncbi Structure of PTB bound to RNA: specific binding and implications for splicing regulation
    Florian C Oberstrass
    Institute for Molecular Biology and Biophysics, Department of Biology, Swiss Federal Institute of Technology, Zurich, ETH Honggerberg, CH 8093 Zurich, Switzerland
    Science 309:2054-7. 2005
    ..Thus, PTB will induce RNA looping when bound to two separated pyrimidine tracts within the same RNA. This leads to structural models for how PTB functions as an alternative-splicing repressor...
  81. pmc Co-transcriptional splicing of constitutive and alternative exons
    Amy Pandya-Jones
    Department of Microbiology, Immunology and Molecular Genetics, University of California at Los Angeles, Los Angeles, California 90095, USA
    RNA 15:1896-908. 2009
    ..Thus, we demonstrate that the decision to include or skip an alternative exon is made during transcription and not post-transcriptionally...
  82. pmc Splicing regulation: from a parts list of regulatory elements to an integrated splicing code
    Zefeng Wang
    Department of Pharmacology, School of Medicine, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
    RNA 14:802-13. 2008
    b>Alternative splicing of pre-mRNAs is a major contributor to both proteomic diversity and control of gene expression levels...
  83. 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
    ..To identify additional PTB-regulated alternative splicing events, we used quantitative proteomic analysis of HeLa cells after knockdown of PTB...
  84. pmc Alternative splicing regulates mouse embryonic stem cell pluripotency and differentiation
    Nathan Salomonis
    Gladstone Institute of Cardiovascular Disease, San Francisco, CA 94158, USA
    Proc Natl Acad Sci U S A 107:10514-9. 2010
    ..would be greatly helped by obtaining a complete picture of the RNA isoforms produced by these cells due to alternative splicing (AS) and alternative promoter selection (APS)...
  85. doi The carboxy terminal domain of RNA polymerase II and alternative splicing
    Manuel J Munoz
    Laboratorio de Fisiologia y Biologia Molecular, Departamento de Fisiologia, Biologia Molecular y Celular, IFIBYNE CONICET, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires Ciudad Universitaria, Pabellon 2, C1428EHA Buenos Aires, Argentina
    Trends Biochem Sci 35:497-504. 2010
    b>Alternative splicing is controlled by cis-regulatory sequences present in the pre-mRNA and their cognate trans-acting factors, as well as by its coupling to RNA polymerase II (pol II) transcription...
  86. pmc Stochastic noise in splicing machinery
    Eugene Melamud
    Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, 9600 Gudelsky Drive, Rockville, MD 20850, USA
    Nucleic Acids Res 37:4873-86. 2009
    ..In this paper, we propose that most alternative splicing events are the result of noise in the splicing process...
  87. pmc High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing
    Kara Juneau
    Department of Biochemistry, Stanford University School of Medicine, Stanford, CA 94305, USA
    Proc Natl Acad Sci U S A 104:1522-7. 2007
    ..This robust methodology can be used to explore environmentally distinct splicing responses and should be readily adaptable to the study of other organisms, including humans...
  88. doi ASTD: The Alternative Splicing and Transcript Diversity database
    Gautier Koscielny
    European Bioinformatics Institute, European Molecular Biology Laboratory, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Genomics 93:213-20. 2009
    The Alternative Splicing and Transcript Diversity database (ASTD) gives access to a vast collection of alternative transcripts that integrate transcription initiation, polyadenylation and splicing variant data...
  89. pmc Antisense correction of SMN2 splicing in the CNS rescues necrosis in a type III SMA mouse model
    Yimin Hua
    Cold Spring Harbor Laboratory, Cold Spring Harbor, New York 11724, USA
    Genes Dev 24:1634-44. 2010
    ..We conclude that this MOE ASO is a promising drug candidate for SMA therapy, and, more generally, that ASOs can be used to efficiently redirect alternative splicing of target genes in the CNS.
  90. pmc The pathobiology of splicing
    Amanda J Ward
    Departments of Molecular and Cellular Biology and Pathology, Baylor College of Medicine, Houston, TX 77030, USA
    J Pathol 220:152-63. 2010
    ..One advantage of this architecture is that it allows alternative splicing by differential use of exons to generate multiple mRNAs from individual genes...
  91. ncbi An increased specificity score matrix for the prediction of SF2/ASF-specific exonic splicing enhancers
    Philip J Smith
    Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, USA
    Hum Mol Genet 15:2490-508. 2006
    ..Finally, we have derived an increased specificity score matrix that incorporates information from both of our SF2/ASF-specific matrices and that accurately predicts the exon-skipping phenotypes of deleterious point mutations...
  92. pmc Global impact of RNA polymerase II elongation inhibition on alternative splicing regulation
    Joanna Y Ip
    Banting and Best Department of Medical Research, Donnelly Centre, University of Toronto, Toronto, Ontario M5S 3E1, Canada
    Genome Res 21:390-401. 2011
    ..transcripts, yet the extent and physiological relevance of this kinetic coupling between transcription and alternative splicing (AS) is not well understood...
  93. pmc 7SK snRNP/P-TEFb couples transcription elongation with alternative splicing and is essential for vertebrate development
    Matjaz Barboric
    Department of Medicine, Rosalind Russell Medical Research Center, University of California, San Francisco, CA 94143 0703, USA
    Proc Natl Acad Sci U S A 106:7798-803. 2009
    ..that 7SK snRNP is not only critical for controlling transcription elongation, but also for regulating alternative splicing of pre-mRNAs...
  94. doi TMEM16A, a membrane protein associated with calcium-dependent chloride channel activity
    Antonella Caputo
    Laboratorio di Genetica Molecolare, Istituto Giannina Gaslini, Genova 16148, Italy
    Science 322:590-4. 2008
    ....
  95. doi Alternative polyadenylation: a twist on mRNA 3' end formation
    Carol S Lutz
    Department of Biochemistry and Molecular Biology, University of Medicine and Dentistry of New Jersey New JerseyMedical School, MSB E671, 185 South Orange Avenue, Newark, New Jersey 07101, USA
    ACS Chem Biol 3:609-17. 2008
    ..Alternative RNA processing events, such as alternative splicing, also have been recognized as key contributors to the complexity of mammalian gene expression...
  96. pmc Internal and external paralogy in the evolution of tropomyosin genes in metazoans
    Manuel Irimia
    Departament de Genetica, Facultat de Biologia, Universitat de Barcelona, Barcelona, Spain
    Mol Biol Evol 27:1504-17. 2010
    ..In each case, recurrent tandem exon duplication and mutually exclusive alternative splicing of the duplicates, with further association between these alternatively spliced exons along the gene, led ..
  97. ncbi Alternative splicing controls selective trans-synaptic interactions of the neuroligin-neurexin complex
    Ben Chih
    Department of Physiology and Cellular Biophysics, Center for Neurobiology and Behavior, Columbia University Medical Center, College of Physicians and Surgeons, P and S 11 511, 630 West 168th Street, New York, New York 10032, USA
    Neuron 51:171-8. 2006
    ..Both neuroligins and neurexins are encoded by multiple genes. Alternative splicing generates large numbers of isoforms, which may engage in selective axo-dendritic interactions...
  98. pmc A novel DNMT3B splice variant expressed in tumor and pluripotent cells modulates genomic DNA methylation patterns and displays altered DNA binding
    Suhasni Gopalakrishnan
    Department of Biochemistry and Molecular Biology, University of Florida, Gainesville, Florida, USA
    Mol Cancer Res 7:1622-34. 2009
    ..Interestingly, all three DNMTs make use of alternative splicing. DNMT3B has nearly 40 known splice variants expressed in a tissue- and disease-specific manner, but very ..
  99. pmc Noisy splicing drives mRNA isoform diversity in human cells
    Joseph K Pickrell
    Department of Human Genetics, The University of Chicago, Chicago, Illinois, United States of America
    PLoS Genet 6:e1001236. 2010
    While the majority of multiexonic human genes show some evidence of alternative splicing, it is unclear what fraction of observed splice forms is functionally relevant...
  100. pmc Autoregulation of Fox protein expression to produce dominant negative splicing factors
    Andrey Damianov
    Howard Hughes Medical Institute, University of California at Los Angeles, Los Angeles, California 90095, USA
    RNA 16:405-16. 2010
    The Fox proteins are a family of regulators that control the alternative splicing of many exons in neurons, muscle, and other tissues...
  101. pmc Genomic features defining exonic variants that modulate splicing
    Adam Woolfe
    Genomic Functional Analysis Section, National Human Genome Research Institute, National Institutes of Health, Rockville, Maryland 20892, USA
    Genome Biol 11:R20. 2010
    ..In addition, little is known about which computational prediction approaches, such as those involving exonic splicing enhancers and exonic splicing silencers, are most informative...

Research Grants98

  1. Use of alternative splicing and rAAV for longterm control of transgene expression
    KYSON CHOU; Fiscal Year: 2007
    ..To avoid the drawback, we are exploring a novel regulation system based on alternative splicing. Alternative splicing is the inclusion or skipping of an alternative exon in between two exons that are ..
  2. MECHANISM OF PRE-MRNA SPLICING
    MAGDA KONARSKA; Fiscal Year: 2009
    ..By contrast, splice site signals in Saccharomyces cerevisiae fit well to the consensus and alternative splicing is thought not to occur in yeast...
  3. Regulation of Ovarian Cancer Multidrug Resistance by MAP Kinases
    Scott T Eblen; Fiscal Year: 2010
    ..Most importantly, phosphorylation of SPF45 on Ser222 by MAP kinases increases its alternative splicing activity...
  4. The Mammalian Cellular Splicing Machine - Structure and Function
    Ruth Sperling; Fiscal Year: 2010
    ..Health Relevance: Defects in alternative splicing were correlated with human pathologies and malignancy...
  5. Nuclear Function of Abl in DNA Damage Response
    Jean Y J Wang; Fiscal Year: 2010
    ..b>Alternative splicing has been shown to generate pro-death and anti-death protein isoforms from a single gene, underscoring the ..
  6. Nuclear Function of Abl in DNA Damage Response
    Jean Wang; Fiscal Year: 2009
    ..b>Alternative splicing has been shown to generate pro-death and anti-death protein isoforms from a single gene, underscoring the ..
  7. MECHANISMS OF ENHANCER DEPENDENT SPLICE SITE ACTIVATION
    Klemens J Hertel; Fiscal Year: 2010
    ..Current estimates indicate that over 90% of human genes undergo alternative splicing, thus greatly increasing the coding potential of our genome...
  8. Mechanisms Regulating Alternative pre-mRNA Splicing
    James Patton; Fiscal Year: 2005
    ..Further, 60% or more of human genes are subject to alternative splicing requiring that cells not only be able to accurately recognize the difference between introns and exons, but ..
  9. TROPONIN T ALTERNATIVE SPLICING IN EMBRYONIC HEART
    Thomas Cooper; Fiscal Year: 1999
    ..The long term goal of this proposal is to understand the m o lecular basis for the regulation of pre-mRNA alternative splicing. Alternative splicing is a common and key regulatory step for the expression of diverse protein isoforms ..
  10. EXON LIGATION--THE SPLICEOSOME AND GROUP 11 INTRONS
    Melissa Moore; Fiscal Year: 1999
    ..Many nascent transcripts are subject to alternative splicing, which provides a means for making more than one protein from a single gene...
  11. MECHANISM OF MIS-SPLICING IN MYOTONIC DYSTROPHY 1
    MUGE KUYUMCU MARTINEZ; Fiscal Year: 2007
    ..The pathogenesis of DM1 involves misregulation of alternative splicing resulting in expression of inappropriate protein isoforms causing specific symptoms...
  12. RNA Binding Proteins & Alternative Splicing
    Paula Grabowski; Fiscal Year: 2007
    ..b>Alternative splicing is a major driving force generating proteomic diversity in mammals, yet its mechanisms, regulatory networks,..
  13. Differential regulation of multiple transgenes for treatment of eye disease
    RICHARD J contact SAMULSKI; Fiscal Year: 2010
    ..a new type of regulation system without such drawbacks, we are exploring a novel regulation system based on alternative splicing. To date, we have developed minimal alternative splicing introns capable of regulating transgene expression...
  14. Alternative processing and antisense regulation of thyroid hormone receptor mRNA
    STEPHEN MUNROE; Fiscal Year: 2007
    ..The first specific aim is to characterize both cis-acting elements and trans-acting proteins that regulate alternative splicing specific to TRa2 mRNA...
  15. MECHANISMS OF PREMRNA SPLICING
    THOMAS MANIATIS; Fiscal Year: 2001
    ..Experiments are proposed to address three aspects of RNA processing: 1. The regulation of alternative splicing. 2. The recognition and pairing of splice sites in constitutively spliced pre- mRNA. 3...
  16. GENERATION OF A NOVEL RECOMBINANT MOUSE MODEL EXPRESSING ONLY ONE COL2A1 ISOFORM
    Audrey McAlinden; Fiscal Year: 2007
    ..in this post-genome sequencing era where we now know that the majority of protein diversity results from alternative splicing of pre-mRNA...
  17. REGULATION OF C-SRC PREMRNA SPLICING
    Douglas Black; Fiscal Year: 2001
    b>Alternative splicing is an important means of genetic control in eucaryotic cells. By altering the splicing pattern of the primary transcript, a variety of proteins can be created from a single gene...
  18. Regulation of CD45 alternative splicing by HNRPLL
    Anjana Rao; Fiscal Year: 2009
    The long-term goal of this project is to understand the mechanisms underlying CD45 alternative splicing and the role of CD45 splicing in lymphocyte and haematopoietic cell biology...
  19. Regulation of CD45 alternative splicing by HNRPLL
    Anjana Rao; Fiscal Year: 2010
    The long-term goal of this project is to understand the mechanisms underlying CD45 alternative splicing and the role of CD45 splicing in lymphocyte and haematopoietic cell biology...
  20. Regulation of alternative pre-mRNA processing by small nucleolar RNAs
    Stefan Stamm; Fiscal Year: 2009
    ..Our long-term goal is to elucidate the regulation of alternative splicing by small RNAs that are estimated to comprise more than 40% of human gene expression...
  21. Regulation of alternative pre-mRNA processing by small nucleolar RNAs
    Stefan Stamm; Fiscal Year: 2010
    ..Our long-term goal is to elucidate the regulation of alternative splicing by small RNAs that are estimated to comprise more than 40% of human gene expression...
  22. Neural Calcium Channels-Regulation and Function
    Diane Lipscombe; Fiscal Year: 2006
    ..We transition from a general description of splice isoforms to determine the importance of alternative splicing in identified neuronal populations...
  23. TROPONIN T ALTERNATIVE SPLICING IN EMBRYONIC HEART
    THOMAS ALEXANDER COOPER; Fiscal Year: 2010
    Our long term goal in this project is to understand the mechanisms that regulate pre-mRNA alternative splicing. The majority of human genes express multiple mRNAs resulting in the expression of functionally diverse isoforms or the on-..
  24. EXON-SPECIFIC FIBRONECTIN ISOFORMS AND CHONDROGENESIS
    NOREEN HICKOK; Fiscal Year: 2003
    ..Fibronectin isoform-changes result from mRNA alternative splicing events involving at least three exons in the fibronectin gene (IIIB, IIIA, and V)...
  25. REGULATION OF MRNA PROCESSING
    Phillip A Sharp; Fiscal Year: 2010
    ..These latter activities are dependent upon alternative splicing of CD44 which produces isoforms containing v6 and other exons...
  26. Mechanisms of Bronchial Myogenesis
    Lucia Schuger; Fiscal Year: 2005
    ..studies we found that heterogeneous ribonucleoprotein-H (hnRNP-H), an RNA-binding protein involved in alternative splicing, inhibits SM differentiation and bronchial myogenesis...
  27. REGULATION OF MRNA PROCESSING
    PHILLIP SHARP; Fiscal Year: 2009
    ..These latter activities are dependent upon alternative splicing of CD44 which produces isoforms containing v6 and other exons...
  28. FUNCTIONAL ANALYSIS OF NUCLEAR RECEPTOR VARIANTS
    Curtis J Omiecinski; Fiscal Year: 2011
    ..program included the discovery of novel forms of CAR, CAR2 and CAR3;receptors generated through the use of alternative splicing mechanisms that result in the insertion of 4- and 5- amino acids, respectively, within the receptors'..
  29. FUNCTIONAL ANALYSIS OF NUCLEAR RECEPTOR VARIANTS
    Curtis J Omiecinski; Fiscal Year: 2010
    ..program included the discovery of novel forms of CAR, CAR2 and CAR3;receptors generated through the use of alternative splicing mechanisms that result in the insertion of 4- and 5- amino acids, respectively, within the receptors'..
  30. Regulation of Alternative Splicing of FGF-R2 pre-mRNA
    MARIANO GARCIA BLANCO; Fiscal Year: 2004
    ..from the applicant's abstract): The broad long-term goal of the proposed work is to understand regulated alternative splicing in mammals...
  31. RED CELL BAND 4.1 - CHANGES IN RNA SPLICING
    JOHN CONBOY; Fiscal Year: 2003
    ..In the red cell, key mechanical and morphological properties of the membrane skeleton are influenced by alternative splicing choices that occur in progenitor cells...
  32. Pathogenesis of Myopathy in Models of Myotonic Dystrophy
    Charles Thornton; Fiscal Year: 2009
    ..foci -> sequestration of muscleblind [Mbnl] proteins in nuclear foci -> abnormal regulation of alternative splicing -> expression of inappropriate splice isoforms -> symptoms of DM...