Selection and optimization of asymmetric siRNA targeting the human c-MET gene

Molecules and Cells

Volumn 32, Issue 6, 2011, Pages 543-548

  Jo, Seul Gi ^a   Hong, Sun Woo ^a,b   Yoo, Jae Wook ^a   Lee, Chang Han ^a   Kim, Sera ^a   Kim, Soyoun ^b   Lee, Dong Ki ^a  

^a Sungkyunkwan University   (South Korea)

^b Dongguk University   (South Korea)

Author keywords

AsiRNA; C MET; Cancer; RNA interference; SiRNA

Indexed keywords

LOCKED NUCLEIC ACID; SCATTER FACTOR RECEPTOR; SMALL INTERFERING RNA; ANTINEOPLASTIC AGENT; LUCIFERASE; OLIGONUCLEOTIDE;

3' UNTRANSLATED REGION; ANTINEOPLASTIC ACTIVITY; ANTISENSE THERAPY; ARTICLE; CANCER INHIBITION; CELL DEATH; CELL PROLIFERATION; CELL STRAIN HEPG2; CHEMICAL MODIFICATION; COMPETITIVE INHIBITION; CONTROLLED STUDY; DNA MICROARRAY; DOWN REGULATION; FEMALE; HELA CELL; HUMAN; HUMAN CELL; PHENOTYPE; PROTEIN TARGETING; QUANTITATIVE ANALYSIS; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA INTERFERENCE; RNA SEQUENCE; RNA STRUCTURE; RNA SYNTHESIS; WESTERN BLOTTING; BIOSYNTHESIS; CELL SURVIVAL; DRUG EFFECT; GENE EXPRESSION; GENE SILENCING; GENETICS; METABOLISM; NUCLEOTIDE SEQUENCE; REPORTER GENE;

ANTINEOPLASTIC AGENTS; BASE SEQUENCE; CELL PROLIFERATION; CELL SURVIVAL; GENE EXPRESSION; GENE KNOCKDOWN TECHNIQUES; GENES, REPORTER; HELA CELLS; HEP G2 CELLS; HUMANS; LUCIFERASES; OLIGONUCLEOTIDES; PROTO-ONCOGENE PROTEINS C-MET; RNA INTERFERENCE; RNA, SMALL INTERFERING;

EID: 84859911037     PISSN: 10168478     EISSN: 02191032     Source Type: Journal    
DOI: 10.1007/s10059-011-0160-1     Document Type: Article

References (24)

1. Chang, C. I., Yoo, J. W., Hong, S. W., Lee, S. E., Kang, H. S., Sun, X., Rogoff, H. A., Ban, C., Kim, S., Li, C. J., et al. (2009). Asymmetric shorter-duplex siRNA structures trigger efficient gene silencing with reduced nonspecific effects. Mol. Ther. 17, 725-732.
2. Chang, C. I., Kim, H. A., Dua, P., Kim, S., Li, C. J., and Lee, D. K. (2011). Structural diversity repertoire of gene silencing small interfering RNAs. Nucleic Acid Ther. 21, 125-131.
3. Christensen, J. G., Burrows, J., and Salgia, R. (2005). c-Met as a target for human cancer and characterization of inhibitors for therapeutic intervention. Cancer Lett. 225, 1-26. (Pubitemid 40732764)
4. Chu, C. Y., and Rana, T. M. (2008). Potent RNAi by short RNA triggers. RNA 14, 1714-1719.
5. Clark, P. R., Pober, J. S., and Kluger, M. S. (2008). Knockdown of TNFR1 by the sense strand of an ICAM-1 siRNA: dissection of an off-target effect. Nucleic Acids Res. 36, 1081-1097. (Pubitemid 351330927)
6. Cooper, C. S., Park, M., Blair, D. G., Tainsky, M. A., Huebner, K., Croce, C. M., and Van de Woude, G. F. (1984). Molecular cloning of a new transforming gene from a chemically transformed human cell line. Nature 311, 29-33. (Pubitemid 14065275)
7. Davidson, B. L., and McCray, P. B., Jr. (2011). Current prospects for RNA interference-based therapies. Nat. Rev. Genet. 12, 329-340.
8. Elbashir, S. M., Harborth, J., Lendeckel, W., Yalcin, A., Weber, K., and Tuschl, T. (2001a). Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells. Nature 411, 494-498. (Pubitemid 32494397)
9. Elbashir, S. M., Martinez, J., Patkaniowska, A., Lendeckel, W., and Tuschl, T. (2001b). Functional anatomy of siRNAs for mediating efficient RNAi in Drosophila melanogaster embryo lysate. EMBO J. 20, 6877-6888. (Pubitemid 33134217)
10. Fedorov, Y., Anderson, E. M., Birmingham, A., Reynolds, A., Karpilow, J., Robinson, K., Leake, D., Marshall, W. S., and Khvorova, A. (2006). Off-target effects by siRNA can induce toxic phenotype. RNA 12, 1188-1196. (Pubitemid 43990544)
11. Gaglione, M., and Messere, A. (2010). Recent progress in chemically modified siRNAs. Mini-Rev. Med. Chem. 10, 578-595.
12. Grimm, D. (2009). Small silencing RNAs: state-of-the-art. Adv. Drug Deliv. Rev. 61, 672-703.
13. Hannon, G. J. (2002). RNA interference. Nature 418, 244-251. (Pubitemid 34773784)
14. Hong, S. W., Yoo, J. W., Kang, H. S., Kim, S., and Lee, D. K. (2009). HIF-1alpha-dependent gene expression program during the nucleic acid-triggered antiviral innate immune responses. Mol. Cells 27, 243-250.
15. Jackson, A. L., and Linsley, P. S. (2010). Recognizing and avoiding siRNA off-target effects for target identification and therapeutic application. Nat. Rev. Drug Discov. 9, 57-67.
16. Karolchik, D., Hinrichs, A. S., Furey, T. S., Roskin, K. M., Sugnet, C. W., Haussler, D., and Kent, W. J. (2004). The UCSC Table Browser data retrieval tool. Nucleic Acids Res. 32, D493-496. (Pubitemid 38081706)
17. Kaur, H., Arora, A., Wengel, J., and Maiti, S. (2006). Thermodynamic, counterion, and hydration effects for the incorporation of locked nucleic acid nucleotides into DNA duplexes. Biochemistry 45, 7347-7355. (Pubitemid 43877421)
18. Kleinman, M. E., Yamada, K., Takeda, A., Chandrasekaran, V., Nozaki, M., Baffi, J. Z., Albuquerque, R. J., Yamasaki, S., Itaya, M., Pan, Y., et al. (2008). Sequence-and target-independent angiogenesis suppression by siRNA via TLR3. Nature 452, 591-597. (Pubitemid 351483358)
19. Ma, P. C., Maulik, G., Christensen, J., and Salgia, R. (2003). c-Met: structure, functions and potential for therapeutic inhibition. Cancer Metastasis Rev. 22, 309-325. (Pubitemid 36791889)
20. Sano, M., Sierant, M., Miyagishi, M., Nakanishi, M., Takagi, Y., and Sutou, S. (2008). Effect of asymmetric terminal structures of short RNA duplexes on the RNA interference activity and strand selection. Nucleic Acids Res. 36, 5812-5821.
21. Sun, X., Rogoff, H. A., and Li, C. J. (2008). Asymmetric RNA duplexes mediate RNA interference in mammalian cells. Nat. Biotechnol. 26, 1379-1382.
22. van Dongen, S., Abreu-Goodger, C., and Enright, A. J. (2008). Detecting microRNA binding and siRNA off-target effects from expression data. Nat. Methods 5, 1023-1025.
23. Vester, B., and Wengel, J. (2004). LNA (locked nucleic acid): highaffinity targeting of complementary RNA and DNA. Biochemistry 43, 13233-13241. (Pubitemid 39391124)
24. Yoo, J. W., Hong, S. W., Kim, S., and Lee, D. K. (2006). Inflammatory cytokine induction by siRNAs is cell type-and transfection reagent-specific. Biochem. Biophys. Res. Commun. 347, 1053-1058. (Pubitemid 44118221)