Annals of the New York Academy of Sciences

Cover image for Annals of the New York Academy of Sciences

December 2003

Volume 1002 THERAPEUTIC OLIGONUCLEOTIDES: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips

Pages ix–xii, 1–271

  1. Frontmatter

    1. Top of page
    2. Frontmatter
    3. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part I. Antisense, Chemistry, Sequence Specificity, and Prodrug
    4. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part II. Interference RNA and Gene Repair
    5. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part III. Antisense Delivery and Gene Therapy
    6. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part IV. CpG Immune Modulators
    7. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part V. DNA Chips, Enhancer Decoys, Triple-Helix, Imaging Gene Expression, and Morpholino Antisense
    8. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VI. Antisense Targets and Combination Strategies
    9. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VII. Antisense Drug Development
    1. Foreword (pages ix–x)

      J. CARL BARRETT

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.001

    2. Introduction (pages xi–xii)

      YOON S. CHO-CHUNG, ALAN M. GEWIRTZ and CY A. STEIN

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.002

  2. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part I. Antisense, Chemistry, Sequence Specificity, and Prodrug

    1. Top of page
    2. Frontmatter
    3. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part I. Antisense, Chemistry, Sequence Specificity, and Prodrug
    4. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part II. Interference RNA and Gene Repair
    5. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part III. Antisense Delivery and Gene Therapy
    6. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part IV. CpG Immune Modulators
    7. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part V. DNA Chips, Enhancer Decoys, Triple-Helix, Imaging Gene Expression, and Morpholino Antisense
    8. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VI. Antisense Targets and Combination Strategies
    9. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VII. Antisense Drug Development
    1. Conceptual “Heat-Driven” Approach to the Synthesis of DNA Oligonucleotides on Microarrays (pages 1–11)

      A. GRAJKOWSKI, J. CIEŚLAK, M. K. CHMIELEWSKI, V. MARCHÁN, L. R. PHILLIPS, A. WILK and S. L. BEAUCAGE

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.003

    2. Reading, Writing, and Modulating Genetic Information with Boranophosphate Mimics of Nucleotides, DNA, and RNA (pages 12–29)

      BARBARA RAMSAY SHAW, MIKHAIL DOBRIKOV, XIN WANG, JING WAN, KAIZHANG HE, JIN-LAI LIN, PING LI, VLADIMIR RAIT, ZINAIDA A. SERGUEEVA and DMITRI SERGUEEV

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.004

  3. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part II. Interference RNA and Gene Repair

    1. Top of page
    2. Frontmatter
    3. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part I. Antisense, Chemistry, Sequence Specificity, and Prodrug
    4. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part II. Interference RNA and Gene Repair
    5. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part III. Antisense Delivery and Gene Therapy
    6. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part IV. CpG Immune Modulators
    7. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part V. DNA Chips, Enhancer Decoys, Triple-Helix, Imaging Gene Expression, and Morpholino Antisense
    8. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VI. Antisense Targets and Combination Strategies
    9. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VII. Antisense Drug Development
    1. The Effect of Hydroxyurea and Trichostatin A on Targeted Nucleotide Exchange in Yeast and Mammalian Cells (pages 43–55)

      HETAL PAREKH-OLMEDO, JULIA U. ENGSTROM and ERIC B. KMIEC

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.006

    2. RNA-Mediated Inhibition of HIV in a Gene Therapy Setting (pages 63–71)

      ALESSANDRO MICHIENZI, DANIELA CASTANOTTO, NANCY LEE, SHIRLEY LI, JOHN A. ZAIA and JOHN J. ROSSI

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.008

  4. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part III. Antisense Delivery and Gene Therapy

    1. Top of page
    2. Frontmatter
    3. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part I. Antisense, Chemistry, Sequence Specificity, and Prodrug
    4. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part II. Interference RNA and Gene Repair
    5. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part III. Antisense Delivery and Gene Therapy
    6. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part IV. CpG Immune Modulators
    7. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part V. DNA Chips, Enhancer Decoys, Triple-Helix, Imaging Gene Expression, and Morpholino Antisense
    8. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VI. Antisense Targets and Combination Strategies
    9. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VII. Antisense Drug Development
    1. Therapeutic Potentialities of EWS-Fli-1 mRNA-Targeted Vectorized Antisense Oligonucleotides (pages 72–77)

      A. MAKSIMENKO, G. LAMBERT, J. R. BERTRAND, E. FATTAL, P. COUVREUR and C. MALVY

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.017

    2. HER-2-Targeted Antisense Oligonucleotide Results in Sensitization of Head and Neck Cancer Cells to Chemotherapeutic Agents (pages 78–89)

      ANTONINA S. RAIT, KATHLEEN F. PIROLLO, DAVID ULICK, KEVIN CULLEN and ESTHER H. CHANG

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.018

    3. Clusterin and IGFBPs as Antisense Targets in Prostate Cancer (pages 95–104)

      MARTIN GLEAVE and BURKHARD JANSEN

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.020

  5. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part IV. CpG Immune Modulators

    1. Top of page
    2. Frontmatter
    3. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part I. Antisense, Chemistry, Sequence Specificity, and Prodrug
    4. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part II. Interference RNA and Gene Repair
    5. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part III. Antisense Delivery and Gene Therapy
    6. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part IV. CpG Immune Modulators
    7. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part V. DNA Chips, Enhancer Decoys, Triple-Helix, Imaging Gene Expression, and Morpholino Antisense
    8. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VI. Antisense Targets and Combination Strategies
    9. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VII. Antisense Drug Development
    1. The Therapeutic Potential of Antigen-Oligonucleotide Conjugates (pages 105–111)

      SANDIP K. DATTA, KENJI TAKABAYASHI and EYAL RAZ

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.022

    2. Regulation of CpG-Induced Immune Activation by Suppressive Oligodeoxynucleotides (pages 112–123)

      DENNIS M. KLINMAN, RAINALD ZEUNER, HIROSHI YAMADA, MAYDA GURSEL, DEBBIE CURRIE and IHSAN GURSEL

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.023

  6. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part V. DNA Chips, Enhancer Decoys, Triple-Helix, Imaging Gene Expression, and Morpholino Antisense

    1. Top of page
    2. Frontmatter
    3. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part I. Antisense, Chemistry, Sequence Specificity, and Prodrug
    4. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part II. Interference RNA and Gene Repair
    5. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part III. Antisense Delivery and Gene Therapy
    6. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part IV. CpG Immune Modulators
    7. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part V. DNA Chips, Enhancer Decoys, Triple-Helix, Imaging Gene Expression, and Morpholino Antisense
    8. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VI. Antisense Targets and Combination Strategies
    9. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VII. Antisense Drug Development
    1. Antigene Radiotherapy : Targeted Radiodamage with 125I-Labeled Triplex-Forming Oligonucleotides (pages 134–140)

      I. G. PANYUTIN, O. A. SEDELNIKOVA, V. N. KARAMYCHEV and R. D. NEUMANN

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.012

    2. Gene Targeting by Triple Helix-Forming Oligonucleotides (pages 141–153)

      ALOKES MAJUMDAR, NITIN PURI, NICHOLAS McCOLLUM, SALLY RICHARDS, BERNARD CUENOUD, PAUL MILLER and MICHAEL M. SEIDMAN

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.013

    3. Potent Inhibition of HhaI DNA Methylase by the Aglycon of 2-(1H)-Pyrimidinone Riboside (Zebularine) at the GCGC Recognition Domain (pages 154–164)

      VICTOR E. MARQUEZ, RAMON ERITJA, JAMES A. KELLEY, DANA VANBEMMEL and JUDITH K. CHRISTMAN

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.014

    4. Imaging Oncogene Expression (pages 165–188)

      XIAOBING TIAN, MOHAN R. ARUVA, PONUGOTI S. RAO, WENYI QIN, PAUL READ, EDWARD R. SAUTER, MATHEW L. THAKUR and ERIC WICKSTROM

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.015

  7. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VI. Antisense Targets and Combination Strategies

    1. Top of page
    2. Frontmatter
    3. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part I. Antisense, Chemistry, Sequence Specificity, and Prodrug
    4. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part II. Interference RNA and Gene Repair
    5. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part III. Antisense Delivery and Gene Therapy
    6. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part IV. CpG Immune Modulators
    7. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part V. DNA Chips, Enhancer Decoys, Triple-Helix, Imaging Gene Expression, and Morpholino Antisense
    8. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VI. Antisense Targets and Combination Strategies
    9. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VII. Antisense Drug Development
    1. Antisense to the Early Growth Response-1 Gene (Egr-1) Inhibits Prostate Tumor Development in TRAMP Mice (pages 197–216)

      VÉRONIQUE BARON, STEPHAN DUSS, JOHNG RHIM and DAN MERCOLA

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.024

  8. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VII. Antisense Drug Development

    1. Top of page
    2. Frontmatter
    3. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part I. Antisense, Chemistry, Sequence Specificity, and Prodrug
    4. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part II. Interference RNA and Gene Repair
    5. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part III. Antisense Delivery and Gene Therapy
    6. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part IV. CpG Immune Modulators
    7. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part V. DNA Chips, Enhancer Decoys, Triple-Helix, Imaging Gene Expression, and Morpholino Antisense
    8. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VI. Antisense Targets and Combination Strategies
    9. Therapeutic Oligonucleotides: Antisense, RNAi, Triple-Helix, Gene Repair, Enhancer Decoys, CpG and DNA Chips: Part VII. Antisense Drug Development
    1. Clinical Studies in Patients with Solid Tumors using a Second-Generation Antisense Oligonucleotide (GEM®231) Targeted against Protein Kinase A Type I (pages 252–262)

      S. MANI, S. GOEL, M. NESTEROVA, R. M. MARTIN, J. M. GRINDEL, M. L. ROTHENBERG, R. ZHANG, G. TORTORA and Y. S. CHO-CHUNG

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.028

    2. Concluding Remarks (page 271)

      ALAN M. GEWIRTZ

      Version of Record online: 24 JAN 2006 | DOI: 10.1196/annals.1281.031

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