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Progress in the Development of Nucleic Acid Therapeutics

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RNA Towards Medicine

Part of the book series: Handbook of Experimental Pharmacology ((HEP,volume 173))

Abstract

Abnormal gene expression is a hallmark of many diseases. Gene-specific down-regulation of aberrant genes could be useful therapeutically and potentially less toxic than conventional therapies due its specificity. Over the years, many strategies have been proposed for silencing gene expression in a gene-specific manner. Three major approaches are antisense oligonucleotides (AS-ONs), ribozymes/DNAzymes, and RNA interference (RNAi). In this brief review, we will discuss the successes and shortcomings of these three gene-silencing methods, and the approaches being taken to improve the effectiveness of antisense molecules. We will also provide an overview of some of the clinical applications of antisense therapy.

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References

  • Adam SA, Marr RS, Gerace L (1990) Nuclear protein import in permeabilized mammalian cells requires soluble cytoplasmic factors. J Cell Biol 111:807–816

    Article  CAS  PubMed  Google Scholar 

  • Adjei AA, Dy GK, Erlichman C, Reid JM, Sloan JA, Pitot HC, Alberts SR, Goldberg RM, Hanson LJ, Atherton PJ, Watanabe T, Geary RS, Holmlund J, Dorr FA (2003) A phase I trial of ISIS 2503, an antisense inhibitor of H-ras, in combination with gemcitabine in patients with advanced cancer. Clin Cancer Res 9:115–123

    CAS  PubMed  Google Scholar 

  • Agrawal S, Kandimalla ER (2001) Antisense and/or immunostimulatory oligonucleotide therapeutics. Curr Cancer Drug Targets 1:197–209

    Article  CAS  PubMed  Google Scholar 

  • Alberts SR, Schroeder M, Erlichman C, Steen PD, Foster NR, Moore DF Jr, Rowland KM Jr, Nair S, Tschetter LK, Fitch TR (2004) Gemcitabine and ISIS-2503 for patients with locally advanced or metastatic pancreatic adenocarcinoma: a North Central Cancer Treatment Group phase II trial. J Clin Oncol 22:4944–4950

    Article  CAS  PubMed  Google Scholar 

  • Alignani D, Maletto B, Liscovsky M, Ropolo A, Moron G, Pistoresi-Palencia MC (2005) Orally administered OVA/CpG-ODN induces specific mucosal and systemic immune response in young and aged mice. J Leukoc Biol 77:898–905

    Article  CAS  PubMed  Google Scholar 

  • Allawi HT, Dong F, Ip HS, Neri BP, Lyamichev VI (2001) Mapping of RNA accessible sites by extension of random oligonucleotide libraries with reverse transcriptase. RNA 7:314–327

    Article  CAS  PubMed  Google Scholar 

  • Anfossi G, Gewirtz AM, Calabretta B (1989) An oligomer complementary to c-myb-encoded mRNA inhibits proliferation of human myeloid leukemia cell lines. Proc Natl Acad Sci U S A 86:3379–3383

    CAS  PubMed  Google Scholar 

  • Aoki Y, Cioca DP, Oidaira H, Kamiya J, Kiyosawa K (2003) RNA interference may be more potent than antisense RNA in human cancer cell lines. Clin Exp Pharmacol Physiol 30:96–102

    Article  CAS  PubMed  Google Scholar 

  • Bacon TA, Wickstrom E (1991) Walking along human c-myc mRNA with antisense oligode-oxynucleotides: maximum efficacy at the 5′ cap region. Oncogene Res 6:13–19

    CAS  PubMed  Google Scholar 

  • Bennett CF, Chiang MY, Chan H, Shoemaker JE, Mirabelli CK (1992) Cationic lipids enhance cellular uptake and activity of phosphorothioate antisense oligonucleotides. Mol Pharmacol 41:1023–1033

    CAS  PubMed  Google Scholar 

  • Bennett CF, Condon TP, Grimm S, Chan H, Chiang MY (1994) Inhibition of endothelial cell adhesion molecule expression with antisense oligonucleotides. J Immunol 152:3530–3540

    CAS  PubMed  Google Scholar 

  • Bernstein E, Denli AM, Hannon GJ (2001) The rest is silence. RNA 7:1509–1521

    CAS  PubMed  Google Scholar 

  • Bramlage B, Alefelder S, Marschall P, Eckstein F (1999) Inhibition of luciferase expression by synthetic hammerhead ribozymes and their cellular uptake. Nucleic Acids Res 27:3159–3167

    Article  CAS  PubMed  Google Scholar 

  • Brazolot Millan CL, Weeratna R, Krieg AM, Siegrist CA, Davis HL (1998) CpG DNA can induce strong Th1 humoral and cell-mediated immune responses against hepatitis B surface antigen in young mice. Proc Natl Acad Sci USA 95:15553–15558

    CAS  PubMed  Google Scholar 

  • Breaker RR, Joyce GF (1994) A DNA enzyme that cleaves RNA. Chem Biol 1:223–229

    Article  CAS  PubMed  Google Scholar 

  • Brennscheidt U, Riedel D, Kolch W, Bonifer R, Brach MA, Ahlers A, Mertelsmann RH, Herrmann F (1994) Raf-1 is a necessary component of the mitogenic response of the human megakaryoblastic leukemia cell line MO7 to human stem cell factor, granulocyte-macrophage colony-stimulating factor, interleukin 3, and interleukin 9. Cell Growth Differ 5:367–372

    CAS  PubMed  Google Scholar 

  • Capaccioli S, Di Pasquale G, Mini E, Mazzei T, Quattrone A (1993) Cationic lipids improve antisense oligonucleotide uptake and prevent degradation in cultured cells and in human serum. Biochem Biophys Res Commun 197:818–825

    Article  CAS  PubMed  Google Scholar 

  • Chanan-Khan A (2004) Bcl-2 antisense therapy in hematologic malignancies. Curr Opin Oncol 16:581–585

    CAS  PubMed  Google Scholar 

  • Coudert B, Anthoney A, Fiedler W, Droz JP, Dieras V, Borner M, Smyth JF, Morant R, de Vries MJ, Roelvink M, Fumoleau P (2001) Phase II trial with ISIS 5132 in patients with small-cell (SCLC) and non-small cell (NSCLC) lung cancer. A European Organization for Research and Treatment of Cancer (EORTC) Early Clinical Studies Group report. Eur J Cancer 37:2194–2198

    Article  CAS  PubMed  Google Scholar 

  • Cripps MC, Figueredo AT, Oza AM, Taylor MJ, Fields AL, Holmlund JT, McIntosh LW, Geary RS, Eisenhauer EA (2002) Phase II randomized study of ISIS 3521 and ISIS 5132 in patients with locally advanced or metastatic colorectal cancer: a National Cancer Institute of Canada clinical trials group study. Clin Cancer Res 8:2188–2192

    CAS  PubMed  Google Scholar 

  • Crooke ST (2004) Antisense strategies. Curr Mol Med 4:465–487

    Article  CAS  PubMed  Google Scholar 

  • Cunningham CC, Holmlund JT, Geary RS, Kwoh TJ, Dorr A, Johnston JF, Monia B, Nemunaitis J (2001) A Phase I trial of H-ras antisense oligonucleotide ISIS 2503 administered as a continuous intravenous infusion in patients with advanced carcinoma. Cancer 92:1265–1271

    Article  CAS  PubMed  Google Scholar 

  • De Rosa G, Bochot A, Quaglia F, Besnard M, Fattal E (2003) A new delivery system for antisense therapy: PLGA microspheres encapsulating oligonucleotide/polyethyleneimine solid complexes. Int J Pharm 254:89–93

    PubMed  Google Scholar 

  • Dean NM, McKay R (1994) Inhibition of protein kinase C-alpha expression in mice after systemic administration of phosphorothioate antisense oligodeoxynucleotides. Proc Natl Acad Sci U S A 91:11762–11766

    CAS  PubMed  Google Scholar 

  • Dean NM, McKay R, Condon TP, Bennett CF (1994) Inhibition of protein kinase C-alpha expression in human A549 cells by antisense oligonucleotides inhibits induction of intercellular adhesion molecule 1 (ICAM-1) mRNA by phorbol esters. J Biol Chem 269:16416–16424

    CAS  PubMed  Google Scholar 

  • Dias N, Stein CA (2002) Antisense oligonucleotides: basic concepts and mechanisms. Mol Cancer Ther 1:347–355

    CAS  PubMed  Google Scholar 

  • Elbashir SM, Harborth J, Lendeckel W, Yalcin A, Weber K, Tuschl T (2001a) Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells. Nature 411:494–498

    Article  CAS  PubMed  Google Scholar 

  • Elbashir SM, Martinez J, Patkaniowska A, Lendeckel W, Tuschl T (2001b) Functional anatomy of siRNAs for mediating efficient RNAi in Drosophila melanogaster embryo lysate. EMBO J 20:6877–6888

    Article  CAS  PubMed  Google Scholar 

  • Flanagan WM, Wagner RW (1997) Potent and selective gene inhibition using antisense oligodeoxynucleotides. Mol Cell Biochem 172:213–225

    Article  CAS  PubMed  Google Scholar 

  • Friedberg JW, Kim H, McCauley M, Hessel EM, Sims P, Fisher DC, Nadler LM, Coffman RL, Freedman AS (2005) Combination immunotherapy with a CpG oligonucleotide (1018 ISS) and rituximab in patients with non-Hodgkin lymphoma: increased interferonalpha/beta-inducible gene expression, without significant toxicity. Blood 105:489–495

    Article  CAS  PubMed  Google Scholar 

  • Frieden M, Christensen SM, Mikkelsen ND, Rosenbohm C, Thrue CA, Westergaard M, Hansen HF, Orum H, Koch T (2003) Expanding the design horizon of antisense oligonucleotides with alpha-L-LNA. Nucleic Acids Res 31:6365–6372

    Article  CAS  PubMed  Google Scholar 

  • Futami T, Miyagishi M, Seki M, Taira K (2002) Induction of apoptosis in HeLa cells with siRNA expression vector targeted against bcl-2. Nucleic Acids Res Suppl 251–252

    Google Scholar 

  • Gabler A, Krebs S, Seichter D, Forster M (2003) Fast and accurate determination of sites along the FUT2 in vitro transcript that are accessible to antisense oligonucleotides by application of secondary structure predictions and RNase H in combination with MALDI-TOF mass spectrometry. Nucleic Acids Res 31:e79

    Article  PubMed  Google Scholar 

  • Gewirtz AM (2000) Oligonucleotide therapeutics: a step forward. J Clin Oncol 18:1809–1811

    CAS  PubMed  Google Scholar 

  • Gewirtz AM, Calabretta B (1988) A c-myb antisense oligodeoxynucleotide inhibits normal human hematopoiesis in vitro. Science 242:1303–1306

    CAS  PubMed  Google Scholar 

  • Gewirtz AM, Stein CA, Glazer PM (1996) Facilitating oligonucleotide delivery: helping antisense deliver on its promise. Proc Natl Acad Sci U S A 93:3161–3163

    Article  CAS  PubMed  Google Scholar 

  • Giannini CD, Roth WK, Piiper A, Zeuzem S (1999) Enzymatic and antisense effects of a specific anti-Ki-ras ribozyme in vitro and in cell culture. Nucleic Acids Res 27:2737–2744

    Article  CAS  PubMed  Google Scholar 

  • Gifford LK, Opalinska JB, Jordan D, Pattanayak V, Greenham P, Kalota A, Robbins M, Vernovsky K, Rodriguez LC, Do BT, Lu P, Gewirtz AM (2005) Identification of antisense nucleic acid hybridization sites in mRNA molecules with self-quenching fluorescent reporter molecules. Nucleic Acids Res 33:e28

    Article  PubMed  Google Scholar 

  • Giles RV, Ruddell CJ, Spiller DG, Green JA, Tidd DM (1995) Single base discrimination for ribonuclease H-dependent antisense effects within intact human leukaemia cells. Nucleic Acids Res 23:954–961

    CAS  PubMed  Google Scholar 

  • Heasman J (2002) Morpholino oligos: making sense of antisense? Dev Biol 243:209–214

    Article  CAS  PubMed  Google Scholar 

  • Ho SP, Britton DH, Stone BA, Behrens DL, Leffet LM, Hobbs FW, Miller JA, Trainor GL (1996) Potent antisense oligonucleotides to the human multidrug resistance-1 mRNA are rationally selected by mapping RNA-accessible sites with oligonucleotide libraries. Nucleic Acids Res 24:1901–1907

    Article  CAS  PubMed  Google Scholar 

  • Hoeller D, Petrie N, Yao F, Eriksson E (2002) Gene therapy in soft tissue reconstruction. Cells Tissues Organs 172:118–125

    Article  CAS  PubMed  Google Scholar 

  • Jansen B, Wacheck V, Heere-Ress E, Schlagbauer-Wadl H, Hoeller C, Lucas T, Hoermann M, Hollenstein U, Wolff K, Pehamberger H (2000) Chemosensitisation of malignant melanoma by BCL2 antisense therapy. Lancet 356:1728–1733

    Article  CAS  PubMed  Google Scholar 

  • Jen KY, Gewirtz AM (2000) Suppression of gene expression by targeted disruption of messenger RNA: available options and current strategies. Stem Cells 18:307–319

    Article  CAS  PubMed  Google Scholar 

  • Kalota A, Shetzline SE, Gewirtz AM (2004) Progress in the development of nucleic acid therapeutics for cancer. Cancer Biol Ther 3:4–12

    CAS  PubMed  Google Scholar 

  • Kichler A (2004) Gene transfer with modified polyethylenimines. J Gene Med 6Suppl 1:S3–10

    CAS  PubMed  Google Scholar 

  • Koping-Hoggard M, Tubulekas I, Guan H, Edwards K, Nilsson M, Varum KM, Artursson P (2001) Chitosan as a nonviral gene delivery system. Structure-property relationships and characteristics compared with polyethylenimine in vitro and after lung administration in vivo. Gene Ther 8:1108–1121

    CAS  PubMed  Google Scholar 

  • Kretschmer-Kazemi Far R, Sczakiel G (2003) The activity of siRNA in mammalian cells is related to structural target accessibility: a comparison with antisense oligonucleotides. Nucleic Acids Res 31:4417–4424

    Article  CAS  PubMed  Google Scholar 

  • Krug A, Towarowski A, Britsch S, Rothenfusser S, Hornung V, Bals R, Giese T, Engelmann H, Endres S, Krieg AM, Hartmann G (2001) Toll-like receptor expression reveals CpG DNA as a unique microbial stimulus for plasmacytoid dendritic cells which synergizes with CD40 ligand to induce high amounts of IL-12. Eur J Immunol 31:3026–3037

    CAS  PubMed  Google Scholar 

  • Kurreck J, Wyszko E, Gillen C, Erdmann VA (2002) Design of antisense oligonucleotides stabilized by locked nucleic acids. Nucleic Acids Res 30:1911–1918

    Article  CAS  PubMed  Google Scholar 

  • Kutryk MJ, Foley DP, van den Brand M, Hamburger JN, van der Giessen WJ, deFeyter PJ, Bruining N, Sabate M, Serruys PW (2002) Local intracoronary administration of antisense oligonucleotide against c-myc for the prevention of in-stent restenosis: results of the randomized investigation by the Thoraxcenter of antisense DNA using local delivery and IVUS after coronary stenting (ITALICS) trial. J Am Coll Cardiol 39:281–287

    Article  CAS  PubMed  Google Scholar 

  • Luger SM, O’Brien SG, Ratajczak J, Ratajczak MZ, Mick R, Stadtmauer EA, Nowell PC, Goldman JM, Gewirtz AM (2002) Oligodeoxynucleotide-mediated inhibition of c-myb gene expression in autografted bone marrow: a pilot study. Blood 99:1150–1158

    Article  CAS  PubMed  Google Scholar 

  • Mani S, Rudin CM, Kunkel K, Holmlund JT, Geary RS, Kindler HL, Dorr FA, Ratain MJ (2002) Phase I clinical and pharmacokinetic study of protein kinase C-alpha antisense oligonucleotide ISIS 3521 administered in combination with 5-fluorouracil and leucovorin in patients with advanced cancer. Clin Cancer Res 8:1042–1048

    CAS  PubMed  Google Scholar 

  • Marcucci G, Byrd JC, Dai G, Klisovic MI, Kourlas PJ, Young DC, Cataland SR, Fisher DB, Lucas D, Chan KK, Porcu P, Lin ZP, Farag SF, Frankel SR, Zwiebel JA, Kraut EH, Balcerzak SP, Bloomfield CD, Grever MR, Caligiuri MA (2003) Phase 1 and pharmacodynamic studies of G3139, a Bcl-2 antisense oligonucleotide, in combination with chemotherapy in refractory or relapsed acute leukemia. Blood 101:425–432

    Article  CAS  PubMed  Google Scholar 

  • Marshall J, Chen H, Yang D, Figueira M, Bouker KB, Ling Y, Lippman M, Frankel SR, Hayes DF (2004a) A phase I trial of a Bcl-2 antisense (G3139) and weekly docetaxel in patients with advanced breast cancer and other solid tumors. Ann Oncol 15:1274–1283

    Article  CAS  PubMed  Google Scholar 

  • Marshall JL, Eisenberg SG, Johnson MD, Hanfelt J, Dorr FA, El-Ashry D, Oberst M, Fuxman Y, Holmlund J, Malik S (2004b) A phase II trial of ISIS 3521 in patients with metastatic colorectal cancer. Clin Colorectal Cancer 4:268–274

    CAS  PubMed  Google Scholar 

  • Milner N, Mir KU, Southern EM (1997) Selecting effective antisense reagents on combinatorial oligonucleotide arrays. Nat Biotechnol 15:537–541

    Article  CAS  PubMed  Google Scholar 

  • Mir KU, Southern EM (1999) Determining the influence of structure on hybridization using oligonucleotide arrays. Nat Biotechnol 17:788–792

    Article  CAS  PubMed  Google Scholar 

  • Monia BP, Johnston JF, Geiger T, Muller M, Fabbro D (1996) Antitumor activity of a phosphorothioate antisense oligodeoxynucleotide targeted against C-raf kinase. Nat Med 2:668–675

    Article  CAS  PubMed  Google Scholar 

  • Nagy P, Arndt-Jovin DJ, Jovin TM (2003) Small interfering RNAs suppress the expression of endogenous and GFP-fused epidermal growth factor receptor (erbB1) and induce apoptosis in erbB1-overexpressing cells. Exp Cell Res 285:39–49

    Article  CAS  PubMed  Google Scholar 

  • Nemunaitis J, Holmlund JT, Kraynak M, Richards D, Bruce J, Ognoskie N, Kwoh TJ, Geary R, Dorr A, Von Hoff D, Eckhardt SG (1999) Phase I evaluation of ISIS 3521, an antisense oligodeoxynucleotide to protein kinase C-alpha, in patients with advanced cancer. J Clin Oncol 17:3586–3595

    CAS  PubMed  Google Scholar 

  • Nestle FO, Mitra RS, Bennett CF, Chan H, Nickoloff BJ (1994) Cationic lipid is not required for uptake and selective inhibitory activity of ICAM-1 phosphorothioate antisense oligonucleotides in keratinocytes. J Invest Dermatol 103:569–575

    Article  CAS  PubMed  Google Scholar 

  • Opalinska JB, Gewirtz AM (2002) Nucleic-acid therapeutics: basic principles and recent applications. Nat Rev Drug Discov 1:503–514

    Article  CAS  PubMed  Google Scholar 

  • Opalinska JB, Kalota A, Gifford LK, Lu P, Jen KY, Pradeepkumar PI, Barman J, Kim TK, Swider CR, Chattopadhyaya J, Gewirtz AM (2004) Oxetane modified, conformationally constrained, antisense oligodeoxyribonucleotides function efficiently as gene silencing molecules. Nucleic Acids Res 32:5791–5799

    Article  CAS  PubMed  Google Scholar 

  • Opalinska JB, Machalinski B, Ratajczak J, Ratajczak MZ, Gewirtz AM (2005) Multi-gene targeting with antisense oligode-oxynucleotides: an exploratory study employing primary human leukemia cells. Clin Cancer Res 11:4948–4954

    CAS  PubMed  Google Scholar 

  • Oza AM, Elit L, Swenerton K, Faught W, Ghatage P, Carey M, McIntosh L, Dorr A, Holmlund JT, Eisenhauer E (2003) Phase II study of CGP 69846A (ISIS 5132) in recurrent epithelial ovarian cancer: an NCIC clinical trials group study (NCIC IND.116). Gynecol Oncol 89:129–133

    Article  CAS  PubMed  Google Scholar 

  • Parry TJ, Cushman C, Gallegos AM, Agrawal AB, Richardson M, Andrews LE, Maloney L, Mokler VR, Wincott FE, Pavco PA (1999) Bioactivity of anti-angiogenic ribozymes targeting Flt-1 and KDR mRNA. Nucleic Acids Res 27:2569–2577

    Article  CAS  PubMed  Google Scholar 

  • Paterson BM, Roberts BE, Kuff EL (1977) Structural gene identification and mapping by DNA-m RNA hybrid-arrested cell-free translation. Proc Natl Acad Sci USA 74:4370–4374

    CAS  PubMed  Google Scholar 

  • Paulasova P, Pellestor F (2004) The peptide nucleic acids (PNAs): a new generation of probes for genetic and cytogenetic analyses. Ann Genet 47:349–358

    PubMed  Google Scholar 

  • Pieken WA, Olsen DB, Benseler F, Aurup H, Eckstein F (1991) Kinetic characterization of ribonuclease-resistant 2′-modified hammerhead ribozymes. Science 253:314–317

    CAS  PubMed  Google Scholar 

  • Pradeepkumar PI, Amirkhanov NV, Chattopadhyaya J (2003) Antisense oligonucleotides with oxetane-constrained cytidine enhance heteroduplex stability, and elicit satisfactory RNase H response as well as showing improved resistance to both exo and endonucleases. Org Biomol Chem 1:81–92

    Article  CAS  PubMed  Google Scholar 

  • Ptasznik A, Nakata Y, Kalota A, Emerson SG, Gewirtz AM (2004) Short interfering RNA (siRNA) targeting the Lyn kinase induces apoptosis in primary, and drug-resistant, BCR-ABL1(+) leukemia cells. Nat Med 10:1187–1189

    Article  CAS  PubMed  Google Scholar 

  • Ratajczak MZ, Hijiya N, Catani L, DeRiel K, Luger SM, McGlave P, Gewirtz AM (1992a) Acute-and chronic-phase chronic myelogenous leukemia colony-forming units are highly sensitive to the growth inhibitory effects of c-myb antisense oligodeoxynucleotides. Blood 79:1956–1961

    CAS  PubMed  Google Scholar 

  • Ratajczak MZ, Kant JA, Luger SM, Hijiya N, Zhang J, Zon G, Gewirtz AM (1992b) In vivo treatment of human leukemia in a scid mouse model with c-myb antisense oligodeoxynucleotides. Proc Natl Acad Sci U S A 89:11823–11827

    CAS  PubMed  Google Scholar 

  • Reed JC, Stein C, Subasinghe C, Haldar S, Croce CM, Yum S, Cohen J (1990) Antisense-mediated inhibition of BCL2 protooncogene expression and leukemic cell growth and survival: comparisons of phosphodiester and phosphorothioate oligodeoxynucleotides. Cancer Res 50:6565–6570

    CAS  PubMed  Google Scholar 

  • Roque F, Mon G, Belardi J, Rodriguez A, Grinfeld L, Long R, Grossman S, Malcolm A, Zon G, Ormont ML, Fischman DL, Shi Y, Zalewski A (2001) Safety of intracoronary administration of c-myc antisense oligomers after percutaneous transluminal coronary angioplasty (PTCA). Antisense Nucleic Acid Drug Dev 11:99–106

    Article  CAS  PubMed  Google Scholar 

  • Rudin CM, Holmlund J, Fleming GF, Mani S, Stadler WM, Schumm P, Monia BP, Johnston JF, Geary R, Yu RZ, Kwoh TJ, Dorr FA, Ratain MJ (2001) Phase I trial of ISIS 5132, an antisense oligonucleotide inhibitor of c-raf-1, administered by 24-hour weekly infusion to patients with advanced cancer. Clin Cancer Res 7:1214–1220

    CAS  PubMed  Google Scholar 

  • Rudin CM, Otterson GA, Mauer AM, Villalona-Calero MA, Tomek R, Prange B, George CM, Szeto L, Vokes EE (2002) A pilot trial of G3139, a bcl-2 antisense oligonucleotide, and paclitaxel in patients with chemorefractory small-cell lung cancer. Ann Oncol 13:539–545

    Article  CAS  PubMed  Google Scholar 

  • Ruffner DE, Dahm SC, Uhlenbeck OC (1989) Studies on the hammerhead RNA self-cleaving domain. Gene 82:31–41

    Article  CAS  PubMed  Google Scholar 

  • Sczakiel G, Homann M, Rittner K (1993) Computer-aided search for effective antisense RNA target sequences of the human immunodeficiency virus type 1. Antisense Res Dev 3:45–52

    CAS  PubMed  Google Scholar 

  • Soler M, McHutchison JG, Kwoh TJ, Dorr FA, Pawlotsky JM (2004) Virological effects of ISIS 14803, an antisense oligonucleotide inhibitor of hepatitis C virus (HCV) internal ribosome entry site (IRES), on HCV IRES in chronic hepatitis C patients and examination of the potential role of primary and secondary HCV resistance in the outcome of treatment. Antivir Ther 9:953–968

    CAS  PubMed  Google Scholar 

  • Song E, Lee SK, Wang J, Ince N, Ouyang N, Min J, Chen J, Shankar P, Lieberman J (2003) RNA interference targeting Fas protects mice from fulminant hepatitis. Nat Med 9:347–351

    Article  CAS  PubMed  Google Scholar 

  • Stull RA, Taylor LA, Szoka FC Jr (1992) Predicting antisense oligonucleotide inhibitory efficacy: a computational approach using histograms and thermodynamic indices. Nucleic Acids Res 20:3501–3508

    CAS  PubMed  Google Scholar 

  • Summerton J, Weller D (1997) Morpholino antisense oligomers: design, preparation, and properties. Antisense Nucleic Acid Drug Dev 7:187–195

    CAS  PubMed  Google Scholar 

  • Sun LQ, Cairns MJ, Saravolac EG, Baker A, Gerlach WL (2000) Catalytic nucleic acids: from lab to applications. Pharmacol Rev 52:325–347

    CAS  PubMed  Google Scholar 

  • Thomas CE, Ehrhardt A, Kay MA (2003) Progress and problems with the use of viral vectors for gene therapy. Nat Rev Genet 4:346–358

    Article  CAS  PubMed  Google Scholar 

  • Tolcher AW (2001) Preliminary phase I results of G3139 (bcl-2 antisense oligonucleotide) therapy in combination with docetaxel in hormone-refractory prostate cancer. Semin Oncol 28:67–70

    Article  CAS  PubMed  Google Scholar 

  • Tolcher AW, Reyno L, Venner PM, Ernst SD, Moore M, Geary RS, Chi K, Hall S, Walsh W, Dorr A, Eisenhauer E (2002) A randomized phase II and pharmacokinetic study of the antisense oligonucleotides ISIS 3521 and ISIS 5132 in patients with hormone-refractory prostate cancer. Clin Cancer Res 8:2530–2535

    CAS  PubMed  Google Scholar 

  • Vester B, Wengel J (2004) LNA (locked nucleic acid): high-affinity targeting of complementary RNA and DNA. Biochemistry 43:13233–13241

    CAS  PubMed  Google Scholar 

  • Vile RG, Russell SJ, Lemoine NR (2000) Cancer gene therapy: hard lessons and new courses. Gene Ther 7:2–8

    Article  CAS  PubMed  Google Scholar 

  • Waters JS, Webb A, Cunningham D, Clarke PA, Raynaud F, di Stefano F, Cotter FE (2000) Phase I clinical and pharmacokinetic study of bcl-2 antisense oligonucleotide therapy in patients with non-Hodgkin’s lymphoma. J Clin Oncol 18:1812–1823

    CAS  PubMed  Google Scholar 

  • Webb A, Cunningham D, Cotter F, Clarke PA, di Stefano F, Ross P, Corbo M, Dziewanowska Z (1997) BCL-2 antisense therapy in patients with non-Hodgkin lymphoma. Lancet 349:1137–1141

    Article  CAS  PubMed  Google Scholar 

  • Wohlbold L, van der Kuip H, Miething C, Vornlocher HP, Knabbe C, Duyster J, Aulitzky WE (2003) Inhibition of bcr-abl gene expression by small interfering RNA sensitizes for imatinib mesylate (STI571). Blood 102:2236–2239

    Article  CAS  PubMed  Google Scholar 

  • Wooldridge JE, Weiner GJ (2003) CpG DNA and cancer immunotherapy: orchestrating the antitumor immune response. Curr Opin Oncol 15:440–445

    CAS  PubMed  Google Scholar 

  • Xing Z, Whitton JL (1992) Ribozymes which cleave arenavirus RNAs: identification of susceptible target sites and inhibition by target site secondary structure. J Virol 66:1361–1369

    CAS  PubMed  Google Scholar 

  • Xu Y, Zhang HY, Thormeyer D, Larsson O, Du Q, Elmen J, Wahlestedt C, Liang Z (2003) Effective small interfering RNAs and phosphorothioate antisense DNAs have different preferences for target sites in the luciferase mRNAs. Biochem Biophys Res Commun 306:712–717

    CAS  PubMed  Google Scholar 

  • Yacyshyn BR, Bowen-Yacyshyn MB, Jewell L, Tami JA, Bennett CF, Kisner DL, Shanahan WR Jr (1998) A placebo-controlled trial of ICAM-1 antisense oligonucleotide in the treatment of Crohn’s disease. Gastroenterology 114:1133–1142

    Article  CAS  PubMed  Google Scholar 

  • Yacyshyn BR, Chey WY, Goff J, Salzberg B, Baerg R, Buchman AL, Tami J, Yu R, Gibiansky E, Shanahan WR (2002) Double blind, placebo controlled trial of the remission inducing and steroid sparing properties of anICAM-1 antisense oligodeoxynucleotide, alicaforsen (ISIS 2302), in active steroid dependent Crohn’s disease. Gut 51:30–36

    Article  CAS  PubMed  Google Scholar 

  • Yang S, Tutton S, Pierce E, Yoon K (2001) Specific double-stranded RNA interference in undifferentiated mouse embryonic stem cells. Mol Cell Biol 21:7807–7816

    CAS  PubMed  Google Scholar 

  • Yin JQ, Gao J, Shao R, Tian WN, Wang J, Wan Y (2003) siRNA agents inhibit oncogene expression and attenuate human tumor cell growth. J Exp Ther Oncol 3:194–204

    Article  CAS  PubMed  Google Scholar 

  • Yu RZ, Su JQ, Grundy JS, Geary RS, Sewell KL, Dorr A, Levin AA (2003) Prediction of clinical responses in a simulated phase III trial of Crohn’s patients administered the antisense phosphorothioate oligonucleotide ISIS 2302: comparison of proposed dosing regimens. Antisense Nucleic Acid Drug Dev 13:57–66

    Article  CAS  PubMed  Google Scholar 

  • Yuen AR, Halsey J, Fisher GA, Holmlund JT, Geary RS, Kwoh TJ, Dorr A, Sikic BI (1999) Phase I study of an antisense oligonucleotide to protein kinase C-alpha (ISIS 3521/CGP 64128A) in patients with cancer. Clin Cancer Res 5:3357–3363

    CAS  PubMed  Google Scholar 

  • Zamecnik PC, Stephenson ML (1978) Inhibition of Rous sarcoma virus replication and cell transformation by a specific oligodeoxynucleotide. Proc Natl Acad Sci U S A 75:280–284

    CAS  PubMed  Google Scholar 

  • Zuker M (1989) Computer prediction of RNA structure. Methods Enzymol 180:262–288

    CAS  PubMed  Google Scholar 

  • Zuker M (2003) Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res 31:3406–3415

    Article  CAS  PubMed  Google Scholar 

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Kalota, A., Dondeti, V., Gewirtz, A. (2006). Progress in the Development of Nucleic Acid Therapeutics. In: Erdmann, V., Barciszewski, J., Brosius, J. (eds) RNA Towards Medicine. Handbook of Experimental Pharmacology, vol 173. Springer, Berlin, Heidelberg. https://doi.org/10.1007/3-540-27262-3_9

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