Oliver Rando

Summary

Affiliation: University of Massachusetts Medical School
Country: USA

Publications

  1. pmc Histone variant H2A.Z marks the 5' ends of both active and inactive genes in euchromatin
    Ryan M Raisner
    Department of Biochemistry and Biophysics, University of California, 600 16th Street, San Francisco, California 94143, USA
    Cell 123:233-48. 2005
  2. ncbi request reprint Timescales of genetic and epigenetic inheritance
    Oliver J Rando
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605, USA
    Cell 128:655-68. 2007
  3. ncbi request reprint Dynamics of replication-independent histone turnover in budding yeast
    Michael F Dion
    Faculty of Arts and Sciences, Center for Systems Biology, Harvard University, Cambridge, MA 02138, USA
    Science 315:1405-8. 2007
  4. ncbi request reprint Chromatin remodelling at promoters suppresses antisense transcription
    Iestyn Whitehouse
    Division of Basic Sciences, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, USA
    Nature 450:1031-5. 2007
  5. ncbi request reprint Mechanisms underlying nucleosome positioning in vivo
    Amanda L Hughes
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, Massachusetts 01605 email
    Annu Rev Biophys 43:41-63. 2014
  6. pmc Replication and active demethylation represent partially overlapping mechanisms for erasure of H3K4me3 in budding yeast
    Marta Radman-Livaja
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, Massachusetts, United States of America
    PLoS Genet 6:e1000837. 2010
  7. pmc The role of nucleosome positioning in the evolution of gene regulation
    Alexander M Tsankov
    Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America
    PLoS Biol 8:e1000414. 2010
  8. pmc Genome-wide identification and characterization of replication origins by deep sequencing
    Jia Xu
    Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, MA 01605, USA
    Genome Biol 13:R27. 2012
  9. pmc Daddy issues: paternal effects on phenotype
    Oliver J Rando
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605, USA
    Cell 151:702-8. 2012
  10. pmc Combinatorial complexity in chromatin structure and function: revisiting the histone code
    Oliver J Rando
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605, USA
    Curr Opin Genet Dev 22:148-55. 2012

Research Grants

Collaborators

Detail Information

Publications30

  1. pmc Histone variant H2A.Z marks the 5' ends of both active and inactive genes in euchromatin
    Ryan M Raisner
    Department of Biochemistry and Biophysics, University of California, 600 16th Street, San Francisco, California 94143, USA
    Cell 123:233-48. 2005
    ..Efficient deposition of H2A.Z is further promoted by a specific pattern of histone H3 and H4 tail acetylation and the bromodomain protein Bdf1, a component of the Swr1 remodeling complex that deposits H2A.Z...
  2. ncbi request reprint Timescales of genetic and epigenetic inheritance
    Oliver J Rando
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605, USA
    Cell 128:655-68. 2007
    ..Although these observations do not undermine Darwin's theory, they suggest that selection and variability are less independent than once thought...
  3. ncbi request reprint Dynamics of replication-independent histone turnover in budding yeast
    Michael F Dion
    Faculty of Arts and Sciences, Center for Systems Biology, Harvard University, Cambridge, MA 02138, USA
    Science 315:1405-8. 2007
    ..In addition, rapid histone turnover is found at known chromatin boundary elements. These results suggest that rapid histone turnover serves to functionally separate chromatin domains and prevent spread of histone states...
  4. ncbi request reprint Chromatin remodelling at promoters suppresses antisense transcription
    Iestyn Whitehouse
    Division of Basic Sciences, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, USA
    Nature 450:1031-5. 2007
    ..Our analyses reveal how chromatin is organized on a global scale and advance our understanding of how transcription is regulated...
  5. ncbi request reprint Mechanisms underlying nucleosome positioning in vivo
    Amanda L Hughes
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, Massachusetts 01605 email
    Annu Rev Biophys 43:41-63. 2014
    ..Here, we review the factors impacting nucleosome positioning and the ways that nucleosomes can control the output of the genome. ..
  6. pmc Replication and active demethylation represent partially overlapping mechanisms for erasure of H3K4me3 in budding yeast
    Marta Radman-Livaja
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, Massachusetts, United States of America
    PLoS Genet 6:e1000837. 2010
    ..Indeed, deletion of the demethylase Jhd2 slowed erasure at most loci. Together, these results indicate overlapping roles for passive dilution and active enzymatic demethylation in erasing ancestral histone methylation states in yeast...
  7. pmc The role of nucleosome positioning in the evolution of gene regulation
    Alexander M Tsankov
    Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America
    PLoS Biol 8:e1000414. 2010
    ..Our study sheds light on the molecular basis of chromatin organization, and on the role of chromatin organization in the evolution of gene regulation...
  8. pmc Genome-wide identification and characterization of replication origins by deep sequencing
    Jia Xu
    Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, MA 01605, USA
    Genome Biol 13:R27. 2012
    ..DNA replication initiates at distinct origins in eukaryotic genomes, but the genomic features that define these sites are not well understood...
  9. pmc Daddy issues: paternal effects on phenotype
    Oliver J Rando
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605, USA
    Cell 151:702-8. 2012
    ..How paternal environmental conditions influence the phenotype of progeny is now a tractable question, and researchers are exploring potential mechanisms underlying such effects...
  10. pmc Combinatorial complexity in chromatin structure and function: revisiting the histone code
    Oliver J Rando
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605, USA
    Curr Opin Genet Dev 22:148-55. 2012
    ..This review will focus on these contrasting results, and will briefly touch on possible ways to reconcile these conflicting views...
  11. pmc Chromatin 'programming' by sequence--is there more to the nucleosome code than %GC?
    Amanda Hughes
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, 364 Plantation Street No, 903, Worcester, MA 01605, USA
    J Biol 8:96. 2009
    ..Thus, the rules for predicting nucleosome occupancy from genomic sequence are much less complicated than has been claimed. See research article http://www.biomedcentral.com/1471-2105/10/442...
  12. pmc RNA polymerase mapping during stress responses reveals widespread nonproductive transcription in yeast
    Tae Soo Kim
    Department of Biological Chemistry and Molecular Pharmacology, Harvard University, 240 Longwood Avenue, Boston, MA 02115, USA
    Genome Biol 11:R75. 2010
    ..However, changes in mRNA abundance reflect the combined effect of changes in RNA production, processing, and degradation, and thus, mRNA levels provide an occluded view of transcriptional regulation...
  13. doi request reprint Evolution in a test tube: the hatchet before the scalpel
    Oliver J Rando
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605, USA
    Cell 135:789-91. 2008
    ..2008) report that extensive polyploidy and aneuploidy are the initial evolutionary changes in yeast selected in vitro to overcome defects resulting from the loss of a myosin II protein crucial for normal cytokinesis...
  14. ncbi request reprint Global patterns of histone modifications
    Oliver J Rando
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605, USA
    Curr Opin Genet Dev 17:94-9. 2007
    ....
  15. ncbi request reprint Chromatin structure in the genomics era
    Oliver J Rando
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605, USA
    Trends Genet 23:67-73. 2007
    ..These same resources are now being used successfully to study the structure of chromatin. Here, I review some of these new genomics approaches to understanding chromatin structure in eukaryotes...
  16. pmc Genome-wide measurement of histone H3 replacement dynamics in yeast
    Oliver J Rando
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA, USA
    Methods Mol Biol 759:41-60. 2011
    ..With suitable modifications, this protocol could be applied to other organisms, or to replacement dynamics of other DNA-associated proteins...
  17. pmc Genome-wide views of chromatin structure
    Oliver J Rando
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605, USA
    Annu Rev Biochem 78:245-71. 2009
    ....
  18. pmc Nucleosome positioning: how is it established, and why does it matter?
    Marta Radman-Livaja
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605, USA
    Dev Biol 339:258-66. 2010
    ....
  19. ncbi request reprint Rules and regulation in the primary structure of chromatin
    Oliver J Rando
    Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605, USA
    Curr Opin Cell Biol 19:250-6. 2007
    ..Understanding the positions and dynamic behavior of nucleosomes promises to shed light on why transcription factors bind so many fewer sites than predicted, how histone variants may be targeted, and how chromatin states are delineated...
  20. pmc Chromatin as a potential carrier of heritable information
    Paul D Kaufman
    Program in Gene Function and Expression, University of Massachusetts Medical School, Worcester, MA 01605, USA
    Curr Opin Cell Biol 22:284-90. 2010
    ..Here, we briefly review the evidence that some chromatin states are indeed heritable, and then focus on the mechanistic challenges that remain in order to understand how this inheritance can be achieved...
  21. doi request reprint A biologist despairs over the difficulty of demonstrating heritability of chromatin states
    Oliver Rando
    University of Massachusetts, Worcester, USA
    Nature 454:141. 2008
  22. pmc Altered dosage and mislocalization of histone H3 and Cse4p lead to chromosome loss in Saccharomyces cerevisiae
    Wei Chun Au
    Genetics Branch Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD 20889, USA
    Genetics 179:263-75. 2008
    ..Suppression of these phenotypes by histone delta 16H3 and GALCSE4 supports the conclusion that proper stoichiometry affects the localization of histone H3 and Cse4p and is thus essential for accurate chromosome segregation...
  23. pmc Genomic expression programs and the integration of the CD28 costimulatory signal in T cell activation
    Maximilian Diehn
    Department of Biochemistry, Stanford University School of Medicine, Stanford, CA 94305, USA
    Proc Natl Acad Sci U S A 99:11796-801. 2002
    ....
  24. ncbi request reprint Second messenger control of chromatin remodeling
    Oliver J Rando
    Nat Struct Biol 10:81-3. 2003
  25. pmc Genomic characterization reveals a simple histone H4 acetylation code
    Michael F Dion
    Bauer Center for Genomics Research, Harvard University, 7 Divinity Avenue, Cambridge, MA 02138, USA
    Proc Natl Acad Sci U S A 102:5501-6. 2005
    ..Thus, acetylation of histone H4 is interpreted by two mechanisms: a specific mechanism for lysine 16 and a nonspecific, cumulative mechanism for lysines 5, 8, and 12...
  26. ncbi request reprint Genome-scale identification of nucleosome positions in S. cerevisiae
    Guo Cheng Yuan
    Bauer Center for Genomics Research, Harvard University, 7 Divinity Avenue, Cambridge, MA 02138, USA
    Science 309:626-30. 2005
    ..Most occupied transcription factor binding motifs were devoid of nucleosomes, strongly suggesting that nucleosome positioning is a global determinant of transcription factor access...
  27. pmc Single-nucleosome mapping of histone modifications in S. cerevisiae
    Chih Long Liu
    Bauer Center for Genomics Research, Harvard University, Cambridge, Massachusetts, USA
    PLoS Biol 3:e328. 2005
    ..g., promoter nucleosomes) from those at another location (e.g., over the 3' ends of coding regions). These results are consistent with the idea of a simple, redundant histone code, in which multiple modifications share the same role...
  28. ncbi request reprint Noisy silencing of chromatin
    Oliver J Rando
    Bauer Center for Genomics Research, Harvard University, 7 Divinity Avenue, Cambridge, Massachusetts 02138
    Dev Cell 11:134-6. 2006
    ....
  29. pmc Independent and complementary methods for large-scale structural analysis of mammalian chromatin
    Jonathan H Dennis
    Department of Molecular Biology, Massachusetts General Hospital, Boston, Massachusetts 02114, USA
    Genome Res 17:928-39. 2007
    ..These results demonstrate the effectiveness of the combined methods for reliable analysis of mammalian chromatin structure in a high-throughput manner...
  30. pmc Phosphatidylinositol-dependent actin filament binding by the SWI/SNF-like BAF chromatin remodeling complex
    Oliver J Rando
    Department of Developmental Biology, Howard Hughes Medical Institute, Stanford University Medical School, Stanford, CA 94305, USA
    Proc Natl Acad Sci U S A 99:2824-9. 2002
    ..Based on these findings, we propose a model for PIP2 activation of actin binding by relief of intramolecular capping of actin by Brg1...

Research Grants5

  1. Transgenerational effects of diet in mammals
    Oliver J Rando; Fiscal Year: 2010
    ..Thus, our identification and characterization of pathways linking diet in one generation to effects on the next generation is of key importance for understanding and eventually treating a wide range of human diseases. ..
  2. Genomic analysis of histone replacement dynamics in yeast
    Oliver Rando; Fiscal Year: 2008
    ..In this proposal we aim to investigate the mechanisms that enable cells to inherit epigenetic information, with the hope that we may eventually use this information to design more directed therapies against cancer. ..
  3. Genomic analysis of histone replacement dynamics in yeast
    Oliver Rando; Fiscal Year: 2009
    ..In this proposal we aim to investigate the mechanisms that enable cells to inherit epigenetic information, with the hope that we may eventually use this information to design more directed therapies against cancer. ..
  4. Transgenerational effects of diet in mammals
    Oliver Rando; Fiscal Year: 2009
    ..Thus, our identification and characterization of pathways linking diet in one generation to effects on the next generation is of key importance for understanding and eventually treating a wide range of human diseases. ..
  5. Genomic analysis of histone replacement dynamics in yeast
    Oliver J Rando; Fiscal Year: 2010
    ..In this proposal we aim to investigate the mechanisms that enable cells to inherit epigenetic information, with the hope that we may eventually use this information to design more directed therapies against cancer. ..