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Volumn 14, Issue 3, 2004, Pages 210-220

ROLL: A method of preparation of gene-specific oligonucleotide libraries

Author keywords

[No Author keywords available]

Indexed keywords

OLIGONUCLEOTIDE; POLYNUCLEOTIDE;

EID: 5444274048     PISSN: 15454576     EISSN: None     Source Type: Journal    
DOI: 10.1089/oli.2004.14.210     Document Type: Article
Times cited : (6)

References (48)
  • 1
    • 0035261221 scopus 로고    scopus 로고
    • Mapping of RNA accessible sites by extension of random oligonucleotide libraries with reverse transcriptase
    • ALLAWI, H.T., DONG, F., IP, H.S., NERI, B.P., and LYAMICHEV, V.I. (2001). Mapping of RNA accessible sites by extension of random oligonucleotide libraries with reverse transcriptase. RNA 7, 314-327.
    • (2001) RNA , vol.7 , pp. 314-327
    • Allawi, H.T.1    Dong, F.2    Ip, H.S.3    Neri, B.P.4    Lyamichev, V.I.5
  • 2
    • 0034327531 scopus 로고    scopus 로고
    • Secondary structure prediction and in vitro accessibility of mRNA as tools in the selection of target sites for ribozymes
    • AMARZGUIOUI, M., BREDE, G., BABAIE, E., GROTLI, M., SPROAT, B., and PRYDZ, H. (2000). Secondary structure prediction and in vitro accessibility of mRNA as tools in the selection of target sites for ribozymes. Nucleic Acids Res. 28, 4113-4124.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 4113-4124
    • Amarzguioui, M.1    Brede, G.2    Babaie, E.3    Grotli, M.4    Sproat, B.5    Prydz, H.6
  • 3
    • 0026056970 scopus 로고
    • Genetic disease detection and DNA amplification using cloned thermostable ligase
    • BARANY, F. (1991). Genetic disease detection and DNA amplification using cloned thermostable ligase. Proc. Natl. Acad. Sci. USA 88, 189-193.
    • (1991) Proc. Natl. Acad. Sci. USA , vol.88 , pp. 189-193
    • Barany, F.1
  • 4
    • 0028355964 scopus 로고
    • Facilitation of hammerhead ribozyme catalysis by the nucleocapsid protein of HIV-1 and the heterogeneous nuclear ribonucleoprotein Al
    • BERTRAND, E.L., and ROSSI, J.J. (1994). Facilitation of hammerhead ribozyme catalysis by the nucleocapsid protein of HIV-1 and the heterogeneous nuclear ribonucleoprotein Al. EMBO J. 13, 2904-2912.
    • (1994) EMBO J. , vol.13 , pp. 2904-2912
    • Bertrand, E.L.1    Rossi, J.J.2
  • 5
    • 0030952735 scopus 로고    scopus 로고
    • Probing accessible sites for ribozymes on human acetylcholinesterase RNA
    • BIRIKH, K.R., BERLIN, Y.A., SOREQ, H., and ECKSTEIN, F. (1997). Probing accessible sites for ribozymes on human acetylcholinesterase RNA. RNA 3, 429-437.
    • (1997) RNA , vol.3 , pp. 429-437
    • Birikh, K.R.1    Berlin, Y.A.2    Soreq, H.3    Eckstein, F.4
  • 6
    • 0033617287 scopus 로고    scopus 로고
    • DNA aptamers selected against the HIV-1 trans-activation-responsive RNA element from RNA-DNA kissing complexes
    • BOIZIAU, C., DAUSSE, E., YURCHENKO, L., and TOULMÉ, J.J. (1999). DNA aptamers selected against the HIV-1 trans-activation-responsive RNA element from RNA-DNA kissing complexes. J. Biol. Chem. 274, 12730-12737.
    • (1999) J. Biol. Chem. , vol.274 , pp. 12730-12737
    • Boiziau, C.1    Dausse, E.2    Yurchenko, L.3    Toulmé, J.J.4
  • 7
    • 0030887663 scopus 로고    scopus 로고
    • Control of complexity constraints on combinatorial screening for preferred oligonucleotide hybridization sites on structured RNA
    • BRUICE, T.W., and LIMA, W.F. (1997). Control of complexity constraints on combinatorial screening for preferred oligonucleotide hybridization sites on structured RNA. Biochemistry 36, 5004-5019.
    • (1997) Biochemistry , vol.36 , pp. 5004-5019
    • Bruice, T.W.1    Lima, W.F.2
  • 8
    • 0036793268 scopus 로고    scopus 로고
    • Generation of amplified genome-specific oligonucleotide probes and libraries
    • BRUKNER, I., TREMBLAY, G.A., and PAQUIN, B. (2002). Generation of amplified genome-specific oligonucleotide probes and libraries. BioTechniques 33, 874-881.
    • (2002) BioTechniques , vol.33 , pp. 874-881
    • Brukner, I.1    Tremblay, G.A.2    Paquin, B.3
  • 9
    • 0028341661 scopus 로고
    • Short antisense oligonucleotide-mediated inhibition is strongly dependent on oligo length and concentration but almost independent of location of the target sequence
    • FAKLER, B., HERLITZE, S., AMTHOR, B., ZENNER, H.P., and RUPPERSBERG, J.P. (1994). Short antisense oligonucleotide-mediated inhibition is strongly dependent on oligo length and concentration but almost independent of location of the target sequence. J. Biol. Chem. 269, 16187-16194.
    • (1994) J. Biol. Chem. , vol.269 , pp. 16187-16194
    • Fakler, B.1    Herlitze, S.2    Amthor, B.3    Zenner, H.P.4    Ruppersberg, J.P.5
  • 11
    • 0019300295 scopus 로고
    • Nucleotide sequence of cDNA coding for Semliki Forest virus membrane glycoproteins
    • GAROFF, H., FRISCHAUF, A.M., SIMONS, K., LEHRACH, H., and DELIUS, H. (1980). Nucleotide sequence of cDNA coding for Semliki Forest virus membrane glycoproteins. Nature 288, 236-241.
    • (1980) Nature , vol.288 , pp. 236-241
    • Garoff, H.1    Frischauf, A.M.2    Simons, K.3    Lehrach, H.4    Delius, H.5
  • 13
    • 0027446944 scopus 로고
    • In vitro selection of optimal DNA substrates for T4 RNA ligase
    • HARADA, K., and ORGEL, L.E. (1993). In vitro selection of optimal DNA substrates for T4 RNA ligase. Proc. Natl. Acad. Sci. USA 90, 1576-1579.
    • (1993) Proc. Natl. Acad. Sci. USA , vol.90 , pp. 1576-1579
    • Harada, K.1    Orgel, L.E.2
  • 14
    • 0003038882 scopus 로고    scopus 로고
    • Mapping of RNA accessible sites for antisense experiments with oligonucleotide libraries
    • HO, S.P., BAO, Y., LESHER, T., MALHOTRA, R., MA, L.Y., FLUHARTY, S.J., and SAKAI, R.R. (1998). Mapping of RNA accessible sites for antisense experiments with oligonucleotide libraries. Nat. Biotechnol. 16, 59-63.
    • (1998) Nat. Biotechnol. , vol.16 , pp. 59-63
    • Ho, S.P.1    Bao, Y.2    Lesher, T.3    Malhotra, R.4    Ma, L.Y.5    Fluharty, S.J.6    Sakai, R.R.7
  • 15
    • 0029938209 scopus 로고    scopus 로고
    • Potent antisense oligonucleotides to the human multidrug resistance-1 mRNA are rationally selected by mapping RNA-accessible sites with oligonucleotide libraries
    • HO, S.P., BRITTON, D.H., STONE, B.A., BEHRENS, D.L., LEFFET, L.M., HOBBS, F.W., MILLER, J.A., and TRAINOR, G.L. (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.
    • (1996) Nucleic Acids Res. , vol.24 , pp. 1901-1907
    • Ho, S.P.1    Britton, D.H.2    Stone, B.A.3    Behrens, D.L.4    Leffet, L.M.5    Hobbs, F.W.6    Miller, J.A.7    Trainor, G.L.8
  • 16
    • 0037089135 scopus 로고    scopus 로고
    • Positional effects of short interfering RNAs targeting the human coagulation trigger tissue factor
    • HOLEN, T., AMARZGUIOUI, M., WIIGER, M.T., BABAIE, E., and PRYDZ, H. (2002). Positional effects of short interfering RNAs targeting the human coagulation trigger tissue factor. Nucleic Acids Res. 30, 1757-1766.
    • (2002) Nucleic Acids Res. , vol.30 , pp. 1757-1766
    • Holen, T.1    Amarzguioui, M.2    Wiiger, M.T.3    Babaie, E.4    Prydz, H.5
  • 17
    • 0031439867 scopus 로고    scopus 로고
    • A new method to synthesize competitor RNAs for accurate analyses by competitive RT-PCR
    • ISHIBASHI, O. (1997). A new method to synthesize competitor RNAs for accurate analyses by competitive RT-PCR. J. Biochem. Biophys. Methods 35, 203-207.
    • (1997) J. Biochem. Biophys. Methods , vol.35 , pp. 203-207
    • Ishibashi, O.1
  • 18
    • 0032533420 scopus 로고    scopus 로고
    • The fidelity of template-directed oligonucleotide ligation and its relevance to DNA computation
    • JAMES, K., BOLES, A., HENCKEL, D., and ELLINGTON, A. (1998). The fidelity of template-directed oligonucleotide ligation and its relevance to DNA computation. Nucleic Acids Res. 26, 5203-5211.
    • (1998) Nucleic Acids Res. , vol.26 , pp. 5203-5211
    • James, K.1    Boles, A.2    Henckel, D.3    Ellington, A.4
  • 19
    • 0037102490 scopus 로고    scopus 로고
    • A functional gene discovery in the Fas-mediated pathway to apoptosis by anal-ysis of transiently expressed randomized hybrid-ribozyme libraries
    • KAWASAKI, H., and TAIRA, K. (2002). A functional gene discovery in the Fas-mediated pathway to apoptosis by anal-ysis of transiently expressed randomized hybrid-ribozyme libraries. Nucleic Acids Res. 30, 3609-3614.
    • (2002) Nucleic Acids Res. , vol.30 , pp. 3609-3614
    • Kawasaki, H.1    Taira, K.2
  • 20
    • 0034682443 scopus 로고    scopus 로고
    • Identification of eIF2Bgamma and eIF2gamma as cofactors of hepatitis C virus internal ribosome entry site-mediated translation using a functional genomics approach
    • KRUGER, M., BEGER, C., LI, Q.X., WELCH, P.J., TRITZ, R., LEAVITT, M., BARBER, J.R., and WONG-STAAL, F. (2000). Identification of eIF2Bgamma and eIF2gamma as cofactors of hepatitis C virus internal ribosome entry site-mediated translation using a functional genomics approach. Proc. Natl. Acad. Sci. USA 97, 8566-8571.
    • (2000) Proc. Natl. Acad. Sci. USA , vol.97 , pp. 8566-8571
    • Kruger, M.1    Beger, C.2    Li, Q.X.3    Welch, P.J.4    Tritz, R.5    Leavitt, M.6    Barber, J.R.7    Wong-Staal, F.8
  • 21
    • 0024297824 scopus 로고
    • A ligase-mediated gene detection technique
    • LANDEGREN, U., KAISER, R., SANDERS, J., and HOOD, L. (1988). A ligase-mediated gene detection technique. Science 241, 1077-1080.
    • (1988) Science , vol.241 , pp. 1077-1080
    • Landegren, U.1    Kaiser, R.2    Sanders, J.3    Hood, L.4
  • 23
    • 0027956640 scopus 로고
    • Specific inhibition of expression of a human collagen gene (COL1A1) with modified antisense oligonucleotides. The most effective target sites are clustered in double-stranded regions of the predicted secondary structure for the mRNA
    • LAPTEV, A.V., LU, Z., COLIGE, A., and PROCKOP, D.J. (1994). Specific inhibition of expression of a human collagen gene (COL1A1) with modified antisense oligonucleotides. The most effective target sites are clustered in double-stranded regions of the predicted secondary structure for the mRNA. Biochemistry 33, 11033-11039.
    • (1994) Biochemistry , vol.33 , pp. 11033-11039
    • Laptev, A.V.1    Lu, Z.2    Colige, A.3    Prockop, D.J.4
  • 24
    • 0034234458 scopus 로고    scopus 로고
    • A novel functional genomics approach identifies mTERT as a suppressor of fibroblast transformation
    • LI, Q.X., ROBBINS, J.M., WELCH, P.J., WONG-STAAL, F., and BARBER, J.R. (2000). A novel functional genomics approach identifies mTERT as a suppressor of fibroblast transformation. Nucleic Acids Res. 28, 2605-2612.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 2605-2612
    • Li, Q.X.1    Robbins, J.M.2    Welch, P.J.3    Wong-Staal, F.4    Barber, J.R.5
  • 25
    • 5444237920 scopus 로고    scopus 로고
    • Methods and means of RNA analysis. International Application (PCT) Patent No. WO 02/24950 A2
    • LIANG, Z., ZHANG, H.-Y., and WAHLESTEDT, C. (2002). Methods and means of RNA analysis. International Application (PCT) Patent No. WO 02/24950 A2.
    • (2002)
    • Liang, Z.1    Zhang, H.-Y.2    Wahlestedt, C.3
  • 26
    • 0028943217 scopus 로고
    • Selection of efficient cleavage sites in target RNAs by using a ribozyme expression library
    • LIEBER, A., and STRAUSS, M. (1995). Selection of efficient cleavage sites in target RNAs by using a ribozyme expression library. Mol. Cell. Biol. 15, 540-551.
    • (1995) Mol. Cell. Biol. , vol.15 , pp. 540-551
    • Lieber, A.1    Strauss, M.2
  • 27
    • 0031032603 scopus 로고    scopus 로고
    • Combinatorial screening and rational optimization for hybridization to folded hepatitis C virus RNA of oligonucleotides with biological antisense activity
    • LIMA, W.F., BROWN-DRIVER, V., FOX, M., HANECAK, R., and BRUICE, T.W. (1997). Combinatorial screening and rational optimization for hybridization to folded hepatitis C virus RNA of oligonucleotides with biological antisense activity. J. Biol. Chem. 272, 626-638.
    • (1997) J. Biol. Chem. , vol.272 , pp. 626-638
    • Lima, W.F.1    Brown-Driver, V.2    Fox, M.3    Hanecak, R.4    Bruice, T.W.5
  • 28
    • 0036232115 scopus 로고    scopus 로고
    • Lead(II) as a probe for investigating RNA structure in vivo
    • LINDELL, M., ROMBY, P., and WAGNER, E.G. (2002). Lead(II) as a probe for investigating RNA structure in vivo. RNA 8, 534-541.
    • (2002) RNA , vol.8 , pp. 534-541
    • Lindell, M.1    Romby, P.2    Wagner, E.G.3
  • 29
    • 0035445170 scopus 로고    scopus 로고
    • Determination of optimal sites of antisense oligonucleotide cleavage within TNFalpha mRNA
    • LLOYD, B.H., GILES, R.V., SPILLER, D.G., GRZYBOWSKI, J., TIDD, D.M., and SIBSON, D.R. (2001). Determination of optimal sites of antisense oligonucleotide cleavage within TNFalpha mRNA. Nucleic Acids Res. 29, 3664-3673.
    • (2001) Nucleic Acids Res. , vol.29 , pp. 3664-3673
    • Lloyd, B.H.1    Giles, R.V.2    Spiller, D.G.3    Grzybowski, J.4    Tidd, D.M.5    Sibson, D.R.6
  • 30
    • 0030902471 scopus 로고    scopus 로고
    • Selecting effective antisense reagents on combinatorial oligonucleotide arrays
    • MILNER, N., MIR, K.U., and SOUTHERN, E.M. (1997). Selecting effective antisense reagents on combinatorial oligonucleotide arrays. Nat. Biotechnol. 15, 537-541.
    • (1997) Nat. Biotechnol. , vol.15 , pp. 537-541
    • Milner, N.1    Mir, K.U.2    Southern, E.M.3
  • 32
    • 5444230408 scopus 로고    scopus 로고
    • Process for the generation of oligonucleotide libraries (OLs) representative of genomes or expressed mRNAs (cDNAs) and uses thereof. International Application (PCT) Patent No. WO 00/43538
    • PAQUIN, B., BRUKNER, I., and TREMBLAY, G. (2000). Process for the generation of oligonucleotide libraries (OLs) representative of genomes or expressed mRNAs (cDNAs) and uses thereof. International Application (PCT) Patent No. WO 00/43538.
    • (2000)
    • Paquin, B.1    Brukner, I.2    Tremblay, G.3
  • 33
    • 0034235828 scopus 로고    scopus 로고
    • In vitro selection supports the view of a kinetic control of antisense RNA-mediated inhibition of gene expression in mammalian cells
    • PATZEL, V., and SCZAKIEL, G. (2000). In vitro selection supports the view of a kinetic control of antisense RNA-mediated inhibition of gene expression in mammalian cells. Nucleic Acids Res. 28, 2462-2466.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 2462-2466
    • Patzel, V.1    Sczakiel, G.2
  • 35
    • 0032534034 scopus 로고    scopus 로고
    • Construction of a directed hammerhead ribozyme library: Towards the identification of optimal target sites for antisense-mediated gene inhibition
    • PIERCE, M.L., and RUFFNER, D.E. (1998). Construction of a directed hammerhead ribozyme library: Towards the identification of optimal target sites for antisense-mediated gene inhibition. Nucleic Acids Res. 26, 5093-5101.
    • (1998) Nucleic Acids Res. , vol.26 , pp. 5093-5101
    • Pierce, M.L.1    Ruffner, D.E.2
  • 36
    • 5444249509 scopus 로고    scopus 로고
    • Directed antisense libraries. International Application (PCT) Patent No. WO99/50457
    • RUFFNER, D.E., PIERCE, M.L., and CHEN, Z. (1999). Directed antisense libraries. International Application (PCT) Patent No. WO99/50457.
    • (1999)
    • Ruffner, D.E.1    Pierce, M.L.2    Chen, Z.3
  • 38
    • 0029864395 scopus 로고    scopus 로고
    • Influence of substrate structure on cleavage by hammerhead ribozyme
    • SCARABINO, D., and TOCCHINI-VALENTINI, G.P. (1996). Influence of substrate structure on cleavage by hammerhead ribozyme. FEBS Lett. 383, 185-190.
    • (1996) FEBS Lett. , vol.383 , pp. 185-190
    • Scarabino, D.1    Tocchini-Valentini, G.P.2
  • 40
    • 0036083152 scopus 로고    scopus 로고
    • The role of target accessibility for antisense inhibition
    • SCZAKIEL, G., and FAR, R.K. (2002). The role of target accessibility for antisense inhibition. Curr. Opin. Mol. Ther. 4, 149-153.
    • (2002) Curr. Opin. Mol. Ther. , vol.4 , pp. 149-153
    • Sczakiel, G.1    Far, R.K.2
  • 41
    • 0842310832 scopus 로고    scopus 로고
    • Restriction enzyme-generated siRNA (REGS) vectors and libraries
    • SEN, G., WEHRMAN, T.S., MYERS, J.W., and BLAU, H.M. (2004). Restriction enzyme-generated siRNA (REGS) vectors and libraries. Nat. Genet. 36, 183-189.
    • (2004) Nat. Genet. , vol.36 , pp. 183-189
    • Sen, G.1    Wehrman, T.S.2    Myers, J.W.3    Blau, H.M.4
  • 43
    • 0034739611 scopus 로고    scopus 로고
    • Selecting optimal antisense reagents
    • SOHAIL, M., and SOUTHERN, E.M. (2000). Selecting optimal antisense reagents. Adv. Drug Deliv. Rev. 44, 23-34.
    • (2000) Adv. Drug Deliv. Rev. , vol.44 , pp. 23-34
    • Sohail, M.1    Southern, E.M.2
  • 44
    • 84984934354 scopus 로고    scopus 로고
    • Molecular interactions on microarrays
    • SOUTHERN, E., MIR, K., and SHCHEPINOV, M. (1999). Molecular interactions on microarrays. Nat. Genet. 21, 5-9.
    • (1999) Nat. Genet. , vol.21 , pp. 5-9
    • Southern, E.1    Mir, K.2    Shchepinov, M.3
  • 45
    • 0023056888 scopus 로고
    • Complete nucleotide sequence of the nonstructural protein genes of Semliki Forest virus
    • TAKKINEN, K. (1986). Complete nucleotide sequence of the nonstructural protein genes of Semliki Forest virus. Nucleic Acids Res. 14, 5667-5682.
    • (1986) Nucleic Acids Res. , vol.14 , pp. 5667-5682
    • Takkinen, K.1
  • 46
    • 0343963180 scopus 로고    scopus 로고
    • Mapping of accessible sites for oligonucleotide hybridization on hepatitis delta virus ribozymes
    • WRZESINSKI, J., LEGIEWICZ, M., and CIESIOLKA, J. (2000). Mapping of accessible sites for oligonucleotide hybridization on hepatitis delta virus ribozymes. Nucleic Acids Res. 28, 1785-1793.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 1785-1793
    • Wrzesinski, J.1    Legiewicz, M.2    Ciesiolka, J.3
  • 47
    • 0024669956 scopus 로고
    • The ligation amplification reaction (LAR) - Amplification of specific DNA sequences using sequential rounds of template-dependent ligation
    • WU, D.Y., and WALLACE, R.B. (1989). The ligation amplification reaction (LAR) - Amplification of specific DNA sequences using sequential rounds of template-dependent ligation. Genomics 4, 560-569.
    • (1989) Genomics , vol.4 , pp. 560-569
    • Wu, D.Y.1    Wallace, R.B.2
  • 48
    • 0032483347 scopus 로고    scopus 로고
    • Cleavage of highly structured viral RNA molecules by combinatorial libraries of hairpin ribozymes. The most effective ribozymes are not predicted by substrate selection rules
    • YU, Q., PECCHIA, D.B., KINGSLEY, S.L., HECKMAN, J.E., and BURKE, J.M. (1998). Cleavage of highly structured viral RNA molecules by combinatorial libraries of hairpin ribozymes. The most effective ribozymes are not predicted by substrate selection rules. J. Biol. Chem. 273, 23524-23533.
    • (1998) J. Biol. Chem. , vol.273 , pp. 23524-23533
    • Yu, Q.1    Pecchia, D.B.2    Kingsley, S.L.3    Heckman, J.E.4    Burke, J.M.5


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