MicroRNAs in disease and potential therapeutic applications

Molecular Therapy

Volumn 15, Issue 12, 2007, Pages 2070-2079

  Soifer, Harris S ^a   Rossi, John J ^a   Sætrom, På ^b  

^a CITY OF HOPE NATIONAL MEDICAL CENTER   (United States)

^b Interagon AS   (Norway)

Author keywords

[No Author keywords available]

Indexed keywords

ANTISENSE OLIGONUCLEOTIDE; MICRORNA; SHORT HAIRPIN RNA; SMALL INTERFERING RNA; VIRUS RNA;

CARCINOGENESIS; CELL ASSAY; CORONARY ARTERY DISEASE; DNA MODIFICATION; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENETIC TRANSCRIPTION; HEART ARRHYTHMIA; HIGH THROUGHPUT SCREENING; HUMAN; NONHUMAN; NONVIRAL GENE THERAPY; PHYSICAL DISEASE; POSTTRANSCRIPTIONAL GENE SILENCING; PROTEIN FUNCTION; PROTEIN TARGETING; REVIEW; RNA INTERFERENCE; RNA METABOLISM; RNA PROCESSING; SIGNAL TRANSDUCTION; VIRUS INFECTION; VIRUS PATHOGENESIS; VIRUS REPLICATION;

MAMMALIA;

EID: 36349032759     PISSN: 15250016     EISSN: 15250024     Source Type: Journal    
DOI: 10.1038/sj.mt.6300311     Document Type: Review

References (162)

1. Lee, RC, Feinbaum, RL and Ambros, V (1993). The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14. Cell 75: 843-854.
2. Fire, A, Xu, S, Montgomery, MK, Kostas, SA, Driver, SE and Mello, CC (1998). Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature 391: 806-811.
3. Rana, TM (2007). Illuminating the silence: Understanding the structure and function of small RNAs. Nat Rev Mol Cell Biol 8: 23-36.
4. Lagos-Quintana, M, Rauhut, R, Yalcin, A, Meyer, J, Lendeckel, W and Tuschl, T (2002). Identification of tissue-specific microRNAs from mouse. Curr Biol 12: 735-739.
5. Altuvia, Y, Landgraf, P, Lithwick, G, Elefant, N, Pfeffer, S, Aravin, A et al. (2005). Clustering and conservation patterns of human microRNAs. Nucleic Acids Res 33: 267-2706.
6. Rodriguez, A, Griffiths-Jones, S, Ashurst, JL and Bradley, A (2004). Identification of mammalian microRNA host genes and transcription units. Genome Res 14: 1902-1910.
7. Lagos-Quintana, M, Rauhut, R, Meyer, J, Borkhardt, A and Tuschl, T (2003). New microRNAs from mouse and human. RNA 9: 175-179.
8. Kim, YK and Kim, VN (2007). Processing of intronic microRNAs. EMBO J 26: 775-783.
9. Baskerville, S and Bartel, DP (2005). Microarray profiling of microRNAs reveals frequent coexpression with neighboring miRNAs and host genes. RNA 11: 241-247.
10. Borchert, GM, Lanier, W and Davidson, BL (2006). RNA polymerase III transcribes human microRNAs. Nat Struct Mol Biol 13: 1097-1101.
11. Lee, Y, Kim, M, Han, J, Yeom, KH, Lee, S, Baek, SH et al. (2004). MicroRNA genes are transcribed by RNA polymerase II. EMBO J 23 4051-4060.
12. Houbaviy, HB, Dennis, L, Jaenisch, R and Sharp, PA (2005). Characterization of a highly variable eutherian microRNA gene. RNA 11: 1245-1257.
13. Zhou, X, Ruan, J, Wang, G and Zhang, W (2007). Characterization and identification of microRNA core promoters in four model species. PLoS Comput Biol 3: E37.
14. Lee, CT, Risom, T and Strauss, WM (2007). Evolutionary conservation of microRNA regulatory circuits: An examination of microRNA gene complexity and conserved microRNA-target interactions through metazoan phylogeny. DNA Cell Biol 26: 209-218.
15. Denli, AM, Tops, BB, Plasterk, RH, Ketting, RF and Hannon, GJ (2004). Processing of primary microRNAs by the microprocessor complex. Nature 432: 231-235.
16. Gregory, RI, Chendrimada, TP and Shiekhattar, R (2006). MicroRNA biogenesis: Isolation and characterization of the microprocessor complex. Methods Mol Biol 342: 33-47.
17. Gregory, RI, Yan, KP, Amuthan, G, Chendrimada, T, Doratotaj, B, Coach, N et al. (2004). The microprocessor complex mediates the genesis of microRNAs. Nature 432: 235-240.
18. Han, J, Lee, Y, Yeom, KH, Kim, YK, Jin, H and Kim, VN (2004). The Drosha-DGCR8 complex in primary microRNA processing. Genes Dev 18: 3016-3027.
19. Landthaler, M, Yalcin, A and Tuschl, T (2004). The human DiGeorge syndrome critical region gene 8 and its D. melanogaster homolog are required for miRNA biogenesis. Curr Biol 14: 2162-2167.
20. Han, J, Lee, Y, Yeom, KH, Nam, JW, Heo, I, Rhee, JK et al. (2006). Molecular basis for the recognition of primary microRNAs by the Drosha-DGCR8 complex. Cell 125: 887-901.
21. Saetrom, P, Snove, O, Nedland, M, Grunfeld, TB, Lin, Y, Bass, MB et al. (2006). Conserved microRNA characteristics in mammals. Oligonucleotides 16: 115-144.
22. Okamura, K, Hagen, JW, Duan, H, Tyler, DM and Lai, EC (2007). The mirtron pathway generates microRNA-class regulatory RNAs in Drosophila. Cell 130: 89-100.
23. Ruby, JG, Jan, CH and Bartel, DP (2007). Intronic microRNA precursors that bypass Drosha processing. Nature 448: 83-86.
24. Yi, R, Qin, Y, Macara, IG and Cullen, BR (2003). Exportin-5 mediates the nuclear export of pre-microRNAs and short hairpin RNAs. Genes Dev 17: 3011-3016.
25. Lund, E, Guttinger, S, Calado, A, Dahlberg, JE and Kutay, U (2004). Nuclear export of microRNA precursors. Science 303: 95-98.
26. Bohnsack, MT, Czaplinski, K and Gorlich, D (2004). Exportin 5 is a RanGTP-dependent dsRNA-binding protein that mediates nuclear export of pre-miRNAs. RNA 10: 185-191.
27. Maniatald, E and Mourelatos, Z (2005). A human, ATP-independent, RISC assembly machine fueled by pre-miRNA. Genes Dev 19: 2979-2990.
28. Lee, Y, Hur, I, Park, SY, Kim, YK, Suh, MR and Kim, VN (2006). The role of PACT in the RNA silencing pathway. EMBO J 125: 522-532.
29. Haase, AD, Jaskiewicz, L, Zhang, H, Laine, S, Sack, R, Gatignol, A et al. (2005). TRBP, a regulator of cellular PKR and HIV-1 virus expression, interacts with Dicer and functions in RNA silencing. EMBO Rep 6: 961-967.
30. Gregory, RI, Chendrimada, TP, Cooch, N and Shiekhattar, R (2005). Human RISC couples microRNA biogenesis and posttranscriptional gene silencing. Cell 123: 631-640.
31. Forstemann, K, Tomari, Y, Du, T, Vagin, W, Denli, AM, Bratu, DP et al. (2005). Normal microRNA maturation and germ-line stem cell maintenance requires Loquacious, a double-stranded RNA-binding domain protein. PLoS Biol 3: E236.
32. Chendrimada, TP, Gregory, RI, Kumaraswamy, E, Norman, J, Cooch, N, Nishikura, K et al. (2005). TRBP recruits the Dicer complex to Ago2 for microRNA processing and gene silencing. Nature 436: 740-744.
33. Castanotto, D, Sakurai, K, Lingeman, R, Li, H, Shively, L, Aagaard, L et al. (2007). Combinatorial delivery of small interfering RNAs reduces RNAi efficacy by selective incorporation into RISC. Nucleic Acids Res (epub ahead of print).
34. Zamore, PD, Tuschl, T, Sharp, PA and Bartel, DP (2000). RNAi: double-stranded RNA directs the ATP-depenclent cleavage of mRNA at 21 to 23 nucleotide intervals. Cell 101: 25-33.
35. Yekta, S, Shih, IH and Bartel, DP (2004). MicroRNA-directed cleavage of HOXB8 mRNA. Science 304: 594-596.
36. Wu, L, Fan, J and Belasco, JG (2006). MicroRNAs direct rapid deadenylation of mRNA. Proc Natl Acad Sci USA 103: 4034-4039.
37. Bagga, S, Bracht, J, Hunter, S, Massirer, K, Holtz, J, Eachus, R et al. (2005). Regulation by let-7 and lin-4 miRNAs results in target mRNA degradation. Cell 122: 553-563.
38. Reinhart, BJ, Slack, FJ, Basson, M, Pasquinelli, AE, Bettinger, JC, Rougvie, AE et al. (200D). The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans. Nature 403: 901-906.
39. Olsen, PH and Ambros, V (1999). The lin-4 regulatory RNA controls developmetal timing in Caenorhabditis elegans by blocking LIN-14 protein synthesis after the initiation of translation. Dev Biol 216: 671-680.
40. Park MY, Wu, G, Gonzalez-Sulser, A, Vaucheret, H and Poethig, RS (2005). Nuclear processing and export of microRNAs in Arabidopsis. Proc Natl Acad Sci USA 102: 3691-3696.
41. Kurihara, Y and Watanabe, Y (2004), Arabidopsis micro-RNA biogenesis through Dicer-like 1 protein functions. Proc Natl Acad Sci USA 101: 12753-12758.
42. Rhoades, MW, Reinhart, BJ, Lim, LP, Burge, CB, Bartel, B and Bartel, DP (2002). Prediction of plant microRNA targets. Cell 110: 513-520.
43. Brennecke, J, Stark, A, Russell, RB and Cohen, SM (2005). Principles of microRNA-target recognition. PLoS Biol 3: E85.
44. Xie, X, Lu, J, Kulbokas, EJ, Golub, TR, Mootha, V, Lindblad-Toh, K et al. (2005). Systematic discovery of regulatory motifs in human promoters and 3′ UTRs by comparison of several mammals. Nature 434: 338-345.
45. Saetrom, O, Snove, O Jr. and Saetrom, P (2005). Weighted sequence motifs as an improved leeding step in microRNA target prediction algorithms. RNA 11: 995-1003.
46. Krek, A, Grun, D, Poy, MN, Wolf, R, Rosenberg, L, Epstein, EJ et al. (2005). Combinatorial microRNA target predictions. Nat Genet 37: 495-500.
47. Lai, EC (2002). Micro RNAs are complementary to 3′ UTR sequence motifs that mediate negative post-transcriptional regulation. Nat Genet 30: 363-364.
48. Lewis, BP, Burge, CB and Bartel, DP (2005). Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell 120: 15-20.
49. Lewis, BP, Shih, IH, Jones-Rhoades, MW, Bartel, DP and Burge, CB (2003). Prediction of mammalian microRNA targets. Cell 115: 787-798.
50. Doench, JG and Sharp, PA (2004). Specificity of microRNA target selection in translational repression. Genes Dev 18: 504-511.
51. Haley, B and Zamore, PD (2004). Kinetic analysis of the RNAi enzyme complex. Nat Struct Mol Biol 11: 599-606.
52. Kloosterman, WP, Wienholds, E, Ketting, RF and Plasterk, RH (2004). Substrate requirements for let-7 function in the developing zebrafish embryo. Nucleic Acids Res 32: 6284-6291.
53. Lim, LP, Lau, NC, Garrett-Engele, P, Grimson, A, Schelter, JM, Castle, J et al. (2005). Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs. Nature 433: 769-773.
54. Ma, JB, Yuan, YR, Meister, G, Pei, Y, Tuschl, T and Patel, DJ (2005). Structural basis for 5′-end-specific recognition of guide RNA by the A. fulgidus Piwi protein. Nature 434: 666-670.
55. Parker, JS, Roe, SM and Barford, D (2005). Structural insights into mRNA recognition from a PIWI domain-siRNA guide complex. Nature 434 663-666.
56. Didiano, D and Hobert, O (2006). Perfect seed pairing is not a generally reliable predictor for miRNA-target interactions. Nat Struct Mol Biol 13: 849-851.
57. Vella, MC, Choi, EY, Lin, SY, Reinert, K and Slack, FJ (2004). The C. elegans microRNA let-7 binds to imperfect let-7 complementary sites from the lin-41 3′UTR. Genes Dev 19: 132-137.
58. Vella, MC, Reinert, K and Slack, FJ (2004). Architecture of a validated microRNA target interaction. Chem Biol 11: 1619-1623.
59. Gaidatzis, D, van Nirnwegen, E, Hausser, J and Zavolan, M (2007). Inference of miRNA targets using evolutionary conservation and pathway analysis. BMC Bioinformatics 8: 69.
60. Saetrom, P, Heale, BS, Snove, O Jr, Aagaard, L, Alluin, J and Rossi, JJ (2007). Distance constraints between microRNA target sites dictate efficacy and cooperativity. Nucleic Acids Res 35: 2333-2342.
61. Caudy, AA, Myers, M, Hannon, GJ and Hammond, SM (2002). Fragile X-related protein and VIG associate with the RNA interference machinery. Genes Dev 16: 2491-2496.
62. Jin, P, Alisch, RS and Warren, ST (2004). RNA and microRNAs in fragile X mental retardation. Nat Cell Biol 6: 1048-1053.
63. Jin, P, Zamescu, DC, Ceman, S, Nakamoto, M, Mowrey, J, Jongens, TA et al. (2004). Biochemical and genetic interaction between the fragile X mental retardation protein and the microRNA pathway. Nat Neurosci 7: 113-117.
64. Plante, I, Davidovic, L, Ouellet, DL, Gobeil, LA, Tremblay, S, Khandjian, EW et al. (2006). Dicer-derived microRNAs are utilized by the fragile X mental retardation protein for assembly on target RNAs. J Biomed Biotechnol 2006: 64347.
65. Zalfa, F, Giorgi, M, Primerano, B, Moro, A, Di Penta, A, Reis, S et al. (2003). The fragile X syndrome protein FMRP associates with BC1 RNA and regulates the translation of specific mRNAs at synapses. Cell 112: 317-327.
66. Okamura, K, Ishizuka, A, Siomi, H and Siomi, MC (2004). Distinct roles for Argonaute proteins in small RNA-directed RNA cleavage pathways. Genes Dev 18: 1655-1666.
67. Yeom, KH, Lee, Y, Han, J, Suh, MR and Kim, VN (2006). Characterization of DGCR8/Pasha, the essential cofactor for Drosha in primary miRNA processing. Nucleic Acids Res 34: 4622-4629.
68. Shiohama, A, Sasaki, T, Noda, S, Minoshima, S and Shimizu, N (2003). Molecular cloning and expression analysis of a novel gene DGCR8 located in the DiGeorge syndrome chromosomal region. Biochem Biophys Res-Commun 304: 184-190.
69. Wang, Y, Medvid, R, Melton, C, Jaenisch, R and Blelloch, R (2007). DGCR8 is essential for microRNA biogenesis and silencing of embryonic stem cell self-renewal. Nat Genet 39: 380-385.
70. Faller, M, Matsunaga, M, Yin, S, Loo, A and Guo, F (2007). Heme is involved in microRNA processing. Nat Struct Mol Biol 14: 23-29.
71. Sullivan, KE (2004). The clinical, immunological, and molecular spectrum of chromosome 22q11.2 deletion syndrome and DiGeorge syndrome. Curr Opin Allergy Clin Immunol 4: 505-512.
72. Karube, Y, Tanaka, H, Osada, H, Tomida, S, Tatematsu, Y, Yanagisawa, K et al. (2005). Reduced expression of Dicer associated with poor prognosis in lung cancer patients. Cancer Sci 96: 111-115.
73. Chiosea, S, Jelezcova, E, Chandran, U, Luo, J, Mantha, G, Sobol, RW et al. (2007). Overexpression of Dicer in precursor lesions of lung adenocarcinoma. Cancer Res 67: 2345-2350.
74. Calin, GA and Croce, CM (2006). MicroRNA signatures in human cancers. Nat Rev Cancer 6: 857-866.
75. Chiosea, S, Jelezcova, E, Chandran, U, Acquafonclata, M, McHale, T, Sobol, RW et al. (2006). Up-regulation of dicer, a component of the MicroRNA machinery, in prostate adenocarcinoma. Am J Pathol 169: 1812-1820.
76. Meister, G, Landthaler, M, Peters, L, Chen, PY, Urlaub, H, Luhrmann, R et al. (2005). Identification of novel argonaute-associated proteins. Curr Biol 15: 2149-2155.
77. Grimm, D, Streetz, KL, Jopling, CL, Storm, TA, Pandey, K, Davis, CR et al. (2006). Fatality in mice due to oversaturation of cellular microRNA/short hairpin RNA pathways. Nature 441: 537-541.
78. Liu, CG, Calin, GA, Meloon, B, Gamliel, N, Sevignani, C, Ferracin, M et al. (2004). An oligonucleotide microchip for genome-wide microRNA profiling in human and mouse tissues. Proc Natl Acad Sci USA 101: 9740-9744.
79. Zhao, JJ, Hua, YJ, Sun, DG, Meng, XX, Xiao, HS and Ma, X (2006). Genome-wide microRNA profiling in human fetal nervous tissues by oligonucleoticle microarray. Childs Nerv Syst 22: 1419-1425.
80. Schmittgen, TD, Jiang, J, Liu, Q and Yang, L (2004). A high-throughput method to monitor the expression of microRNA precursors. Nucleic Acids Res 32: E43.
81. Chen, C, Ridzon, DA, Broomer, AJ, Zhou, Z, Lee, DH, Nguyen, JT et al. (2005). Real-time quantification of microRNAs by stem-loop RT-PCR. Nucleic Acids Res 33: E179.
82. Cummins, JM, He, Y, Leary, RJ, Pagliarini, R, Diaz, LA Jr, Sjoblom, T et al. (2006). The colorectal microRNAome. Proc Natl Acad Sci USA 103: 3687-3692.
83. Nelson, PT, Baldwin, DA, Scearce, LM, Oberholtzer, JC, Tobias, JW and Mourelatos, Z (2004). Microarray-based, high-throughput gene expression profiling of microRNAs. Nat Methods 1: 155-161.
84. Calin, GA, Liu, CG, Sevignani, C, Ferracin, M, Felli, N, Dumitru, CD et al. (2004). MicroRNA profiling reveals district signatures in B cell chronic lymphocytic leukemias. Proc Natl Acad Sci USA 101 11755-11760.
85. Lu, J, Getz, G, Miska, EA, Alvarez-Saavedra, E, Lamb, J, Peck, D et al. (2005). MicroRNA expression profiles classify human cancers. Nature 435; 834-838.
86. Volinia, 5, Calin, GA, Liu, CG, Ambs, S, Cimmino, A, Petrocca, F et al. (2006). A microRNA expression signature of human solid tumors defines cancer gene targets. Proc Natl Acad Sci USA 103: 2257-2261.
87. Perkins, DO, Jeffries, CD, Jarskog, LF, Thomson, JM, Woods, K, Newman, MA et at. (2007). microRNA expression in the prefrontal cortex of individuals with schizophrenia and schizoaffective disorder. Genom Biol 9: R27.
88. Lukiw, WJ (2007). Micro-RNA speciation in fetal, adult and Alzheimer's disease hippocampus. Neuroreport 18: 297-300.
89. Kulshreshtha, R, Ferracin, M, Wojcik, SE, Garzon, R, Alder, H, Agosto-Perez, FJ et al. (2007). A microRNA signature of hypoxia. Mol Cell Biol. 27: 1859-1867.
90. He, H, Jazdzewski, K, Li, W, Liyanarachchi, S, Nagy, R, Volinia, S et al. (2005). The role of microRNA genes in papillary thyroid carcinoma. Proc Natl Acad Sci USA 102: 19075-19080.
91. Matsubara, H, Takeuchi, T, Nishikawa, E, Yanagisawa, K, Hayashita, Y, Ebi, H et al. (2007). Apoptosis induction by antisense oligonucleoticles against miR-17-5p and miR-20a in lung cancers overexpressing miR-17-92. Oncogene (epub ahead of print).
92. O'Donnell, KA, Wentzell, EA, Zeller, KI, Dang, CV and Mendell, JT (2005). c-Myc-regulated microRNAs modulate E2F1 expression. Nature 435: 839-843.
93. Hayashita, Y, Osada, H, Tatematsu, Y, Yamada, H, Yanagisawa, K, Tomida, S et al. (2005). A polycistronic microRNA cluster, miR-17-92, is overexpressed in human lung cancers and enhances cell proliferation. Cancer Res 65: 9628-9632.
94. Cimmino, A, Calin, GA, Fabbri, M, Iorio, MV, Ferracin, M, Shimizu, M et al. (2005). miR-15 and miR-16 induce apoptosis by targeting BCL2. Proc Natl Acad Sci USA 102: 13944-13949.
95. Chan, JA, Krichevsky, AM and Kosik KS (2005). MicroRNA-21 is an antiapoptotic factor in human glioblastoma cells. Cancer Res 65 6029-6033.
96. Costinean, S, Zanesi, N, Pekarsky, Y, Tili, E, Volinia, S, Heerema, N et al. (2006). Pre-B cell proliferation and lymphoblastic leukemia/ high-grade lymphoma in E(mu)-miR155 transgenic mice. Proc Natl Acad Sci USA 103: 7024-7029.
97. He, L, Thomson, JM, Hemann, MT, Hernando-Monge, E, Mu, D, Goodson, S et al. (2005). A microRNA polycistron as a potential human oncogene. Nature 435: 828-833.
98. Voorhoeve, PM, le Sage, C, Schrier, M, Gillis, AJ, Stoop, H, Nagel, R et al. (2006). A genetic screen implicates miRNA-372 and miRNA-373 as oncogenes in testicular germ cell tumors. Cell 124: 1169-1181.
99. Esquela-Kerscher, A and Slack, FJ (2006). Oncomirs - microRNAs with a role in cancer. Nat Rev Cancer 6: 259-269.
100. van Rooij, E, Sutherland, LB, Liu, N, Williams, AH, McAnally, J, Gerard, RD et al. (2006). A signature pattern of stress-responsive microRNAs that can evoke cardiac hypertrophy and heart failure. Proc Natl Acad Sci USA 103: 18255-18260.
101. Zhao, Y, Ransom, JF, Li, A, Vedantham, V, von Drehle, M, Muth, AN et al. (2007). Dysregulation of cardiogenesis, cardiac conduction, and cell cycle in mice lacking miRNA-1-2. Cell 129: 303-317.
102. Zhao, Y, Samal, E and Srivastava, D (2005). Serum response factor regulates a muscle-specific microRNA that targets Hand2 during cardiogenesis. Nature 436: 214-220.
103. Yang, B, Lin, H, Xiao, J, Lu, Y, Luo, X, Li, B et al. (2007). The muscle-specific microRNA miR-1 regulates cardiac arrhythmogenic potential by targeting GJA1 and KCNJ2. Nat Med 13: 486-491.
104. Care, A, Catalucci, D, Felicetti, F, Bonci, D, Addario, A, Gallo, P et al. (2007). MicroRNA-131 controls cardiac hypertrophy. Nat Med 13: 613-619.
105. Abelson, JF, Kwan, KY, O'Roak, BJ, Baek DY, Stillman, AA, Morgan, TM et al. (2005). Sequence variants in SLITRK1 are associated with Tourette's syndrome. Science 310: 317-320.
106. Lu, S and, Cullen, BR (2004). Adenovirus VA1 noncoding RNA can inhibit small interfering RNA and MicroRNA biogenesis. J Virol 79: 12868-12876.
107. Pfeffer, S, Zavolan, M, Grasser, FA, Chien, M, Russo, JJ, Ju, J et al. (2004). Identification of virus-encoded microRNAs. Science 304: 734-736.
108. Samols, MA, Hu, J, Skalsky, RL and Rerme, R (2005). Cloning and identification of a microRNA, cluster within the latency-associated region of Kaposi's sarcoma-associated herpesvirus. J Virol 79 9301-9305.
109. Pfeffer, S, Sewer, A, Lagos-Quintana, M, Sheridan, R, Sander, C, Grasser, FA et al. (2005). Identification of microRNAs of the herpesvirus family. Nat Methods 2: 269-276.
110. Cai, X, Lu, S, Zhang, Z, Gonzalez, CM, Damania, B and Cullen, BR (2005). Kaposi's sarcoma-associated herpesvirus expresses an array of viral microRNAs in latently infected cells. Proc Natl Acad Sci USA 102: 5570-5575.
111. Cai, X and Cullen, BR (2006). Transcriptional origin of Kaposi's sarcoma-associated herpesvirus microRNAs. J Virol 80: 2234-2242.
112. Dunn, W, Trang, P, Zhong, Q, Yang, E, van Belle, C and Liu, F (2005). Human cytomegalovirus expresses novel microRNAs during productive viral infection. Cell Microbiol 7: 1684-1695.
113. Sullivan, CS, Grundhoff, AT, Tevethia, S, Pipas, JM and Ganem, D (2005). SV40-encoded microRNAs regulate viral gene expression and reduce susceptibility to cytotoxic T cells. Nature 435: 682-686.
114. Stern-Ginossar, N, Elefant, N, Zimmermann, A, Wolf, DG, Saleh, N, Biton, M et al. (2007). Host immune system gene targeting by a viral miRNA. Science 317: 376-381.
115. Omoto, S, Ito, M, Tsutsumi, Y, Ichikawa, Y, Okuyama, H, Brisibe, EA et al. (2004). HIV-1 net suppression by virally encoded microRNA. Retrovirology 1: 44.
116. Bennasser, Y, Le, SY, Yeung, ML and Jeang, KT (2006). MicroRNAs in human immunodeficiency virus-1 infection. Methods Mol Biol 342: 241-253.
117. Bennasser, Y and Jeang, KT (2006). HIV-1 Tat interaction with Dicer: requirement for RNA. Retrovirology 3: 95.
118. Triboulet, R, Mari, B, Lin, YL, Chable-Bessia, C, Bennasser, Y, Lebrigand, K et al. (2007). Suppression of microRNA-silencing pathway by HIV-1 during virus replication. Science 315: 1579-1582.
119. Dykxhoorn, DM and Lieberman, J (2006). Running interference: Prospects and obstacles to using small interfering RNAs as small molecule drugs. Annu Rev Biomed Eng 8: 377-402.
120. Hannon, GJ and Rossi, JJ (2004). Unlocking the potential of the human genome with RNA interference. Nature 431: 371-378.
121. Doench, JG, Petersen, CP and Sharp, PA (2003). siRNAs can function as miRNAs. Genes Dev 17: 438-442.
122. Kim, DH and Rossi, JJ (2007). Strategies for silencing human disease using RNA interference. Nat Rev Genet 8: 173-184.
123. Shen, J, Samul, R, Silva, RL, Akiyama, H, Liu, H, Saishin, Y et al. (2006). Suppression of ocular neovascularization with siRNA targeting VEGF receptor 1. Gene Ther 13: 225-234.
124. Bitko, V, Musiyenko, A, Shulyayeva, O and Barik, S (2005). Inhibition of respiratory viruses by nasally administered siRNA. Nat Med 11 50-55.
125. Palliser, D, Chowdhury, D, Wang, QY, Lee, SJ, Bronson, RT, Knipe, DM et al. (2006). An siRNA-based microbicide protects mice from lethal herpes simplex virus 2 infection. Nature 439: 89-94.
126. Morrissey, DV, Lockridge, JA, Shaw, L, Blanchard, K, Jensen, K, Breen, W et al. (2005). Potent and persistent in vivo anti-HBV activity of chemically modified siRNAS. Nat Biotechnol 23: 1002-1007.
127. Soutschek, J, Akinc, A, Bramlage, B, Charisse, K, Constien, R, Donoghue, M et al. (2004). Therapeutic silencing of an endogenous gene by systemic administration of modified siRNAs. Nature 432: 173-178.
128. Zimmermann, TS, Lee, AC, Akinc, A, Bramlage, B, Bumcrot, D, Fedoruk, MN et al. (2006). RNAi-mediated gene silencing in non-human primates. Nature 441: 111-114.
129. Chu, TC, Twu, KY, Ellington, AD and Levy, M (2006). Aptamer mediated siRNA delivery. Nucleic Acids Res 34: E73.
130. Hu-Lleskovan, S, Heidel, JD, Bartlett, DW, Davis, ME and Triche, TJ (2005). Sequence-specific knockdown of EWS-FLI1 by targeted, nonviral delivery of small interfering RNA inhibits tumor growth in a murine model of metastatic Ewing's sarcoma. Cancer Res 65: 8984-8992.
131. McNamara, JO 2nd, Andrechek, ER, Wang, Y, Viles, KD, Rempel, RE, Gilboa, E et al. (2006). Cell type-specific delivery of siRNAs with aptamer-siRNA chimeras. Nat Biotechnol 24: 1005-1015.
132. Song, E, Zhu, P, Lee, SK, Chowdhury, D, Kussman, S, Dykxhoorn, DM et al. (2005). Antibody mediated in vivo delivery of small interfering RNAs via cell-surface receptors. Nat Biotechnol 23 709-717.
133. Brummelkamp, TP, Bernards, R and Agami, R (2002). Stable suppression of tumongenicity by virus-mediated RNA Interference. Cancer Cell 2 243-247.
134. Paddison, PJ, Caudy, AA, Bernstein, E, Hannon, GJ and Conklin, DS (2002). Short hairpin RNAs (shRNAs) induce sequence-specific silencing in mammalian cells. Genes Dev 16: 948-958.
135. Kay, MA, Glorioso, JC and Naldini, L (2001). Viral vectors for gene therapy: The art of turning infectious agents into vehicles of therapeutics. Nat Med 7: 33-40.
136. Snove, O Jr and Rossi, JJ (2006). Expressing short hairpin RNAs in vivo. Nat Methods 3: 689-695.
137. Kim, DH, Behlke, MA, Rose, SID, Chang, MS, Choi, S and Rossi, JJ (2005). Synthetic dsRNA Dicer substrates enhance RNAi potency and efficacy. Nat Biotechnol 23: 222-226.
138. Siolas, D, Lerner, C, Burchard, J, Ge, W, Linsley, PS, Paddison, PJ et al. (2005). Synthetic shRNAs as potent RNAi triggers. Nat Biotechnol 23: 227-231.
139. Boden, D, Pusch, O, Silbermann, R, Lee, F, Tucker, L and Ramratnam, B (2004). Enhanced gene silencing of HIV-1 specific siRNA using microRNA designed hairpins. Nucleic Acids Res 32: 1154-1158.
140. Chung, KH, Hart, CC, Al-Bassam, S, Avery, A, Taylor, J, Patel, PD et al. (2006). Polycistronic RNA polymerase II expression vectors for RNA interference based on BIC/miR-155. Nucleic Acids Res 34: e53.
141. Zeng, Y, Cai, X and Cullen, BR (2005). Use of RNA polymerase II to transcribe artificial microRNAs. Methods Enzymol 392: 371-380.
142. Zeng, Y, Wagner, EJ and Cullen, OR (2002). Both natural and designed micro RNAs can inhibit the expression of cognate mRNAs when expressed in human cells. Mol Cell 9: 1327-1333.
143. Zhou, H, Xia, XG and Xu, Z (2005). An RNA polymerase II construct synthesizes short-hairpin RNA with a quantitative indicator and mediates highly efficient RNAi. Nucleic Acids Res 33: E62.
144. Chen, CZ, Li, L, Ladish, HF and Bartel, DP (2004). MicroRNAs modulate hematopoietic lineage differentiation. Science 303: 83-86.
145. Robson, T and Hirst, DG (2003). Transcriptional targeting in cancer gene therapy. J Biomed Biotechnol 2003: 110-137.
146. Davis, S, Lollo, B, Freler, S and Esau, C (2006). Improved targeting of miRNA with antisense oligonucleotides. Nucliec Acids Res 34: 2294-2304.
147. Hutvagner, G, Simard, MJ, Mello, CC and Zamore, PD (2004). Sequence-specific inhibition of small RNA function. PLoS Biol 2 E98.
148. Meister, G, Landthaler, M, Dorsett, Y and Tuschl, T (2004). Sequence-specific inhibition of microRNA- and siRNA-induced RNA silencing. RNA 10: 544-550.
149. Orom, UA, Kauppinen, S and Lund, AH (2006). LNA-modified oligonuclecitides mediate specific inhibition of microRNA function. Gene 372: 137-141.
150. Krutzfeldt, J, Kuwajima, S, Braich, R, Rajeev, KG, Pena, J, Tuschl, T et al. (2007). Specificity, duplex degradation and subcellular localization of antagomirs. Nucleic Acids Res 35: 2885-2892.
151. Krutzfeldt, J, Rajewsky, N, Braich, R, Rajeev, KG, Tuschl, T, Manoharan, M et al. (2005). Silencing of microRNAs in vivo with 'antagomirs'. Nature 438: 685-689.
152. Esau, C, Davis, S, Murray, SF, Yu, XX, Pandey, SK, Pear, M et al. (2006). miR-122 regulation of lipid metabolism revealed by in vivo antisense targeting. Cell Metab 3: 87-98.
153. Vermeulen, A, Robertson, B, Dalby, AB, Marshall, WS, Karpilow, J, Leake, D et al. (2007). Double-stranded regions are essential design components of potent inhibitors of RISC function. RNA 13: 723-730.
154. Thomson, JM, Newman, M, Parker, JS, Morin-Kensicki, EM, Wright, T and Hammond, SM (2006). Extensive post-transcriptional regulation of microRNAs and its implications for cancer. Genes Dev 20: 2202-2207.
155. Aagaard, L, Amarzguioui, M, Sun, G, Santos, LC, Ehsani, A, Prydz, H et al. (2007). A facile lentiviral vector system for expression of doxycycline-inducible shRNAs: Knockdown of the pre-miRNA processing enzyme Drosha. Mol Ther 15: 938-945.
156. Robb, GB, Brown, KM, Khurana, J and Rana, TM (2005). Specific and potent RNAi in the nucleus of human cells. Nat Struct Mol Biol 12: 133-137.
157. Morris, KV and Rossi, JJ (2006). Lentivirus-mediated RNA interfenence therapy for human immunodeficiency virus type 1 infection. Hum Gene Ther 17: 479-486.
158. Morris, KV, Chan, SW, Jacobsen, SE and Looney, DJ (2004). Small interfering RNA-induced transcriptional gene silencing in human cells. Science 305: 1289-1292.
159. Grimson, A, Farh, KK, Johnston, WK, Garrett-Engele, P, Lim, LP and Bartel, DP (2007). MicroRNA targeting specificity in mammals: determinants beyond seed pairing. Mol Cell 27: 91-105.
160. Saito, Y, Liang, G, Egger, G, Friedman, JM, Chuang, JC, Coetzee, GA et al. (2006). Specific activation of microRNA-127 with downregulation of the proto-oncogene BCL6 by chromatin-modifying drugs in human cancer cells. Cancer Cell 9: 435-443.
161. Duan, R, Pak, C and Jin, P (2007). Single nucleotide polymorphism associated with mature miR-125a alters the processing of pri-miRNA. Hum Mol Genet 16: 1124-1131.
162. Clop, A, Marcq, F, Takeda, H, Pirottin, D, Tordoir, X, Bibe, B et al. (2006). A mutation creating a potential illegitimate microRNA target site in the myostatin gene affects. muscularity in sheep. Nat Genet 38: 813-818.