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classes/biol414/spring2008
Reviews

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Contents

Transcription mechanisms

  • Orphanides G, Reinberg D. A unified theory of gene expression. Cell. 2002 108:439-451. [Pubmed] [PDF]
  • Hahn S. Structure and mechanism of the RNA polymerase II transcription machinery. Nat Struct Mol Biol. 2004 11:394-403. [Pubmed] [PDF]
  • Sims RJ, Belotserkovskaya R, Reinberg D. Elongation by RNA polymerase II: the short and long of it. Genes Dev. 2004 18:2437-2468. [Pubmed] [PDF]

Chromatin remodeling complexes

  • Berger SL. The complex language of chromatin regulation during transcription. Nature. 2007 447:407-412. [Pubmed] [PDF]
  • Khorasanizadeh S. The nucleosome: from genomic organization to genomic regulation. Cell. 2004 116:259-272. [Pubmed] [PDF]
  • Kouzarides T. Chromatin modifications and their function. Cell. 2007 128:693-705. [Pubmed] [PDF]
  • Kwon CS, Wagner D. Unwinding chromatin for development and growth: a few genes at a time.Trends Genet. 2007 23:403-412. [Pubmed] [PDF]
  • Saha A, Wittmeyer J, Cairns BR. Chromatin remodelling: the industrial revolution of DNA around histones. Nat Rev Mol Cell Biol. 2006 7:437-447. [Pubmed] [PDF]

Chromatin stucture/variant histones

  • Guillemette B, Gaudreau L. Reuniting the contrasting functions of H2A.Z. Biochem Cell Biol. 2006 84:528-535. [Pubmed] [PDF]
  • Raisner RM, Madhani HD. Patterning chromatin: form and function for H2A.Z variant nucleosomes. Curr Opin Genet Dev. 2006 16:119-124. [Pubmed] [Fulltext]

Translation and translational control

  • Dever TE. Gene-specific regulation by general translation factors. Cell. 2002 108:545-556. [Pubmed] [PDF]
  • Gebauer F, Hentze MW. Molecular mechanisms of translational control. Nat Rev Mol Cell Biol. 2004 5:827-835. [Pubmed] [PDF]
  • Jackson RJ. Alternative mechanisms of initiating translation of mammalian mRNAs. Biochem Soc Trans. 2005 33:1231-1241. [Pubmed] [PDF]
  • Proud CG. Signalling to translation: how signal transduction pathways control the protein synthetic machinery. Biochem J. 2007 403:217-234. [PubMed] [PDF]
  • Richter JD. CPEB: a life in translation. Trends Biochem Sci. 2007 32:279-285. [PubMed] [Full text]

Quality control

  • Amrani N, Sachs MS, Jacobson A. Early nonsense: mRNA decay solves a translational problem. Nat Rev Mol Cell Biol. 2006 7:415-425. [PubMed] [PDF]
  • Behm-Ansmant I, Kashima I, Rehwinkel J, Saulière J, Wittkopp N, Izaurralde E. mRNA quality control: an ancient machinery recognizes and degrades mRNAs with nonsense codons. FEBS Lett. 2007 581:2845-2853. [PubMed] [PDF]
  • Chang YF, Imam JS, Wilkinson MF. The nonsense-mediated decay RNA surveillance pathway. Annu Rev Biochem. 2007 76:51-74. [PubMed] [PDF]
  • Fasken MB, Corbett AH. Process or perish: quality control in mRNA biogenesis. Nat Struct Mol Biol. 2005 12:482-488. [PubMed] [PDF]
  • Isken O, Maquat LE. Quality control of eukaryotic mRNA: safeguarding cells from abnormal mRNA function.Genes Dev. 2007 21:1833-1856. [PubMed] [PDF]
  • Vanacova S, Stefl R. The exosome and RNA quality control in the nucleus. EMBO Rep. 2007 8:651-657. [PubMed] [PDF]

Localized translation in dendrites

  • Klann E, Dever TE. Biochemical mechanisms for translational regulation in synaptic plasticity. Nat Rev Neurosci. 2004 5:931-942. [PubMed] [PDF]
  • Pfeiffer BE, Huber KM. Current advances in local protein synthesis and synaptic plasticity. J Neurosci. 2006 26:7147-7150. [PubMed] [PDF]
  • Richter JD. CPEB: a life in translation. Trends Biochem Sci. 2007 32:279-285. [PubMed] [Full text]
  • Schuman EM, Dynes JL, Steward O. Synaptic regulation of translation of dendritic mRNAs. J Neurosci. 2006 26:7143-7146. [PubMed] [PDF]
  • Sutton MA, Schuman EM. Dendritic protein synthesis, synaptic plasticity, and memory. Cell. 2006 127:49-58. [PubMed[PDF]

RNA interference and microRNAs

  • Kim VN. MicroRNA biogenesis: coordinated cropping and dicing. Nat Rev Mol Cell Biol. 2005 6:376-385. [Pubmed] [PDF]
  • Parker R, Sheth U. P bodies and the control of mRNA translation and degradation. Mol Cell. 2007 25:635-646. [Pubmed] [PDF]
  • Zamore PD, Haley B. Ribo-gnome: the big world of small RNAs. Science. 2005 309:1519-1524. [Pubmed] [PDF]