-
2
-
-
0026612858
-
Oligonucleotide hybridizations on glass supports -A novel linker for oligonucleotide synthesis and hybridization properties of oligonucleotides synthesized in situ
-
Maskos,U. and Southern,E.M. (1992) Oligonucleotide hybridizations on glass supports-a novel linker for oligonucleotide synthesis and hybridization properties of oligonucleotides synthesized in situ. Nucleic Acids Res., 20, 1679-1684.
-
(1992)
Nucleic Acids Res.
, vol.20
, pp. 1679-1684
-
-
Maskos, U.1
Southern, E.M.2
-
3
-
-
0020071534
-
Cloning and screening of sequences expressed in a mouse colon-tumor
-
Augenlicht,L.H. and Kobrin,D. (1982) Cloning and screening of sequences expressed in a mouse colon-tumor. Cancer Res., 42, 1088-1093.
-
(1982)
Cancer Res.
, vol.42
, pp. 1088-1093
-
-
Augenlicht, L.H.1
Kobrin, D.2
-
4
-
-
0023474254
-
Identification of interferon-modulated proliferation-related cDNA sequences
-
U.S.A.
-
Kulesh,D.A., Clive,D.R., Zarlenga,D.S. and Greene,J.J. (1987) Identification of interferon-modulated proliferation-related cDNA sequences. Proc. Natl. Acad. Sci. U.S.A., 84, 8453-8457.
-
(1987)
Proc. Natl. Acad. Sci.
, vol.84
, pp. 8453-8457
-
-
Kulesh, D.A.1
Clive, D.R.2
Zarlenga, D.S.3
Greene, J.J.4
-
5
-
-
0028806048
-
Quantitative monitoring of gene-expression patterns with a complementary-DNA microarray
-
Schena,M., Shalon,D., Davis,R.W. and Brown,P.O. (1995) Quantitative monitoring of gene-expression patterns with a complementary-DNA microarray. Science, 270, 467-470.
-
(1995)
Science
, vol.270
, pp. 467-470
-
-
Schena, M.1
Shalon, D.2
Davis, R.W.3
Brown, P.O.4
-
6
-
-
0016700864
-
Detection of specific sequences among DNA fragments separated by gel-electrophoresis
-
Southern,E.M. (1975) Detection of specific sequences among DNA fragments separated by gel-electrophoresis. J. Mol. Biol., 98, 503-511.
-
(1975)
J. Mol. Biol.
, vol.98
, pp. 503-511
-
-
Southern, E.M.1
-
7
-
-
0026108692
-
Light-directed, spatially addressable parallel chemical synthesis
-
Fodor,S.P.A., Read,J.L., Pirrung,M.C., Stryer,L., Lu,A.T. and Solas,D. (1991) Light-directed, spatially addressable parallel chemical synthesis. Science, 251, 767-773.
-
(1991)
Science
, vol.251
, pp. 767-773
-
-
Fodor, S.P.A.1
Read, J.L.2
Pirrung, M.C.3
Stryer, L.4
Lu, A.T.5
Solas, D.6
-
8
-
-
0032085014
-
Analysing genetic information with DNA arrays
-
Case-Green,S.C., Mir,K.U., Pritchard,C.E. and Southern,E.M. (1998) Analysing genetic information with DNA arrays. Curr. Opin. Chem. Biol., 2, 404-410.
-
(1998)
Curr. Opin. Chem. Biol.
, vol.2
, pp. 404-410
-
-
Case-Green, S.C.1
Mir, K.U.2
Pritchard, C.E.3
Southern, E.M.4
-
9
-
-
0036405278
-
DNA microarray technology: Devices, systems, and applications
-
Heller,M.J. (2002) DNA microarray technology: devices, systems, and applications. Annu. Rev. Biomed. Eng., 4, 129-153.
-
(2002)
Annu. Rev. Biomed. Eng.
, vol.4
, pp. 129-153
-
-
Heller, M.J.1
-
10
-
-
0031963203
-
DNA chips: State-of-the-art
-
Ramsay,G. (1998) DNA chips: state-of-the-art. Nat. Biotechnol., 16, 40-44.
-
(1998)
Nat. Biotechnol.
, vol.16
, pp. 40-44
-
-
Ramsay, G.1
-
11
-
-
33644844520
-
Microarray technology: Beyond transcript profiling and genotype analysis
-
Hoheisel,J.D. (2006) Microarray technology: beyond transcript profiling and genotype analysis. Nat. Rev. Genet., 7, 200-210.
-
(2006)
Nat. Rev. Genet.
, vol.7
, pp. 200-210
-
-
Hoheisel, J.D.1
-
12
-
-
16244412610
-
RNA structure analysis at single nucleotide resolution by selective 2-hydroxyl acylation and primer extension (SHAPE)
-
Merino,E.J., Wilkinson,K.A., Coughlan,J.L. and Weeks,K.M. (2005) RNA structure analysis at single nucleotide resolution by selective 2-hydroxyl acylation and primer extension (SHAPE). J. Am. Chem. Soc., 127, 4223-4231.
-
(2005)
J. Am. Chem. Soc.
, vol.127
, pp. 4223-4231
-
-
Merino, E.J.1
Wilkinson, K.A.2
Coughlan, J.L.3
Weeks, K.M.4
-
13
-
-
33947720028
-
Selective 2-hydroxyl acylation analyzed by primer extension (SHAPE): Quantitative RNA structure analysis at single nucleotide resolution
-
Wilkinson,K.A.,Merino,E.J. and Weeks,K.M. (2006) Selective 2-hydroxyl acylation analyzed by primer extension (SHAPE): quantitative RNA structure analysis at single nucleotide resolution. Nat. Prot., 1, 1610-1616.
-
(2006)
Nat. Prot.
, vol.1
, pp. 1610-1616
-
-
Wilkinson, K.A.1
Merino, E.J.2
Weeks, K.M.3
-
14
-
-
79960581588
-
Modeling and automation of sequencing-based characterization of RNA structure
-
U.S.A.
-
Aviran,S., Trapnell,C., Lucks,J.B., Mortimer,S.A., Luo,S., Schroth,G.P., Doudna,J.A., Arkin,A.P. and Pachter,L. (2011) Modeling and automation of sequencing-based characterization of RNA structure. Proc. Natl. Acad. Sci. U.S.A., 108, 11069-11074.
-
(2011)
Proc. Natl. Acad. Sci.
, vol.108
, pp. 11069-11074
-
-
Aviran, S.1
Trapnell, C.2
Lucks, J.B.3
Mortimer, S.A.4
Luo, S.5
Schroth, G.P.6
Doudna, J.A.7
Arkin, A.P.8
Pachter, L.9
-
15
-
-
79960571755
-
Multiplexed RNA structure characterization with selective 2'-hydroxyl acylation analyzed by primer extension sequencing (SHAPE-Seq)
-
U.S.A.
-
Lucks,J.B., Mortimer,S.A., Trapnell,C., Luo,S., Aviran,S., Schroth,G.P., Pachter,L., Doudna,J.A. and Arkin,A.P. (2011) Multiplexed RNA structure characterization with selective 2'-hydroxyl acylation analyzed by primer extension sequencing (SHAPE-Seq). Proc. Natl. Acad. Sci. U.S.A., 108, 11063-11068.
-
(2011)
Proc. Natl. Acad. Sci.
, vol.108
, pp. 11063-11068
-
-
Lucks, J.B.1
Mortimer, S.A.2
Trapnell, C.3
Luo, S.4
Aviran, S.5
Schroth, G.P.6
Pachter, L.7
Doudna, J.A.8
Arkin, A.P.9
-
16
-
-
84890771087
-
Determination of in vivo RNA structure in low-abundance transcripts
-
Kwok,C.K., Ding,Y., Tang,Y., Assmann,S.M. and Bevilacqua,P.C. (2013) Determination of in vivo RNA structure in low-abundance transcripts. Nat. Commun., 4, 2971.
-
(2013)
Nat. Commun.
, vol.4
, pp. 2971
-
-
Kwok, C.K.1
Ding, Y.2
Tang, Y.3
Assmann, S.M.4
Bevilacqua, P.C.5
-
17
-
-
84871298684
-
RNA SHAPE analysis in living cells
-
Spitale,R.C., Crisalli,P., Flynn,R.A., Torre,E.A., Kool,E.T. and Chang,H.Y. (2013) RNA SHAPE analysis in living cells. Nat. Chem. Biol., 9, 18-20.
-
(2013)
Nat. Chem. Biol.
, vol.9
, pp. 18-20
-
-
Spitale, R.C.1
Crisalli, P.2
Flynn, R.A.3
Torre, E.A.4
Kool, E.T.5
Chang, H.Y.6
-
18
-
-
0032890879
-
The folding of large RNAs studied by hybridization to arrays of complementary oligonucleotides
-
Sohail,M., Akhtar,S. and Southern,E.M. (1999) The folding of large RNAs studied by hybridization to arrays of complementary oligonucleotides. RNA, 5, 646-655.
-
(1999)
RNA
, vol.5
, pp. 646-655
-
-
Sohail, M.1
Akhtar, S.2
Southern, E.M.3
-
19
-
-
0035873670
-
Antisense oligonucleotides selected by hybridisation to scanning arrays are effective reagents in vivo
-
Sohail,M., Hochegger,H., Klotzbucher,A., Le Guellec,R., Hunt,T. and Southern,E.M. (2001) Antisense oligonucleotides selected by hybridisation to scanning arrays are effective reagents in vivo. Nucleic Acids Res., 29, 2041-2051.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 2041-2051
-
-
Sohail, M.1
Hochegger, H.2
Klotzbucher, A.3
Le Guellec, R.4
Hunt, T.5
Southern, E.M.6
-
20
-
-
0030902471
-
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. Biotech., 15, 537-541.
-
(1997)
Nat. Biotech.
, vol.15
, pp. 537-541
-
-
Milner, N.1
Mir, K.U.2
Southern, E.M.3
-
21
-
-
0032857575
-
Determining the influence of structure on hybridization using oligonucleotide arrays
-
Mir,K.U. and Southern,E.M. (1999) Determining the influence of structure on hybridization using oligonucleotide arrays. Nat. Biotech., 17, 788-792.
-
(1999)
Nat. Biotech.
, vol.17
, pp. 788-792
-
-
Mir, K.U.1
Southern, E.M.2
-
22
-
-
0033947287
-
Hybridization of antisense reagents to RNA
-
Sohail,M. and Southern,E.M. (2000) Hybridization of antisense reagents to RNA. Curr. Opin. Mol. Ther., 2, 264-271.
-
(2000)
Curr. Opin. Mol. Ther.
, vol.2
, pp. 264-271
-
-
Sohail, M.1
Southern, E.M.2
-
23
-
-
0029962816
-
DNA chips: Analysing sequence by hybridization to oligonucleotides on a large scale
-
Southern,E.M. (1996) DNA chips: analysing sequence by hybridization to oligonucleotides on a large scale. Trends Genet., 12, 110-115.
-
(1996)
Trends Genet.
, vol.12
, pp. 110-115
-
-
Southern, E.M.1
-
24
-
-
0028241481
-
Arrays of complementary oligonucleotides for analyzing the hybridization behavior of nucleic acids
-
Southern,E.M., Casegreen,S.C., Elder,J.K., Johnson,M., Mir,K.U., Wang,L. and Williams,J.C. (1994) Arrays of complementary oligonucleotides for analyzing the hybridization behavior of nucleic acids. Nucleic Acids Res., 22, 1368-1373.
-
(1994)
Nucleic Acids Res.
, vol.22
, pp. 1368-1373
-
-
Southern, E.M.1
Casegreen, S.C.2
Elder, J.K.3
Johnson, M.4
Mir, K.U.5
Wang, L.6
Williams, J.C.7
-
25
-
-
0026742791
-
Analyzing and comparing nucleic acid sequences by hybridization to arrays of oligonucleotides-evaluation using experimental models
-
Southern,E.M., Maskos,U. and Elder,J.K. (1992) Analyzing and comparing nucleic acid sequences by hybridization to arrays of oligonucleotides-evaluation using experimental models. Genomics, 13, 1008-1017.
-
(1992)
Genomics
, vol.13
, pp. 1008-1017
-
-
Southern, E.M.1
Maskos, U.2
Elder, J.K.3
-
26
-
-
0031301021
-
-
John Wiley & Sons Ltd, Chichester
-
Southern,E.M., Milner,N. and Mir,K.U. (1997) Oligonucleotides as Therapeutic Agents. John Wiley & Sons Ltd, Chichester, Vol. 209, pp. 38-44.
-
(1997)
Oligonucleotides As Therapeutic Agents
, vol.209
, pp. 38-44
-
-
Southern, E.M.1
Milner, N.2
Mir, K.U.3
-
27
-
-
0026582659
-
Parallel analysis of oligodeoxyribonucleotide (oligonucleotide) interactions 1. Analysis of factors influencing oligonucleotide duplex formation
-
Maskos,U. and Southern,E.M. (1992) Parallel analysis of oligodeoxyribonucleotide (oligonucleotide) interactions.1. Analysis of factors influencing oligonucleotide duplex formation. Nucleic Acids Res., 20, 1675-1678.
-
(1992)
Nucleic Acids Res.
, vol.20
, pp. 1675-1678
-
-
Maskos, U.1
Southern, E.M.2
-
28
-
-
0027232970
-
A novel method for the parallel analysis of multiple mutations in multiple samples
-
Maskos,U. and Southern,E.M. (1993) A novel method for the parallel analysis of multiple mutations in multiple samples. Nucleic Acids Res., 21, 2269-2270.
-
(1993)
Nucleic Acids Res.
, vol.21
, pp. 2269-2270
-
-
Maskos, U.1
Southern, E.M.2
-
29
-
-
0027452496
-
A study of oligonucleotide reassociation using large arrays of oligonucleotides synthesized on a glass support
-
Maskos,U. and Southern,E.M. (1993) A study of oligonucleotide reassociation using large arrays of oligonucleotides synthesized on a glass support. Nucleic Acids Res., 21, 4663-4669.
-
(1993)
Nucleic Acids Res.
, vol.21
, pp. 4663-4669
-
-
Maskos, U.1
Southern, E.M.2
-
30
-
-
14644417900
-
Structural rearrangements in RNA on the binding of an antisense oligonucleotide: Implications for the study of intra-molecular RNA interactions and the design of cooperatively acting antisense reagents with enhanced efficacy
-
Sohail,M., Doran,G., Kang,S., Akhtar,S. and Southern,E.M. (2005) Structural rearrangements in RNA on the binding of an antisense oligonucleotide: implications for the study of intra-molecular RNA interactions and the design of cooperatively acting antisense reagents with enhanced efficacy. J. Drug Target., 13, 61-70.
-
(2005)
J. Drug Target.
, vol.13
, pp. 61-70
-
-
Sohail, M.1
Doran, G.2
Kang, S.3
Akhtar, S.4
Southern, E.M.5
-
31
-
-
33747454274
-
Interpreting oligonucleotide microarray data to determine RNA secondary structure: Application to the 3end of Bombyx mori R2 RNA
-
Duan,S.H., Mathews,D.H. and Turner,D.H. (2006) Interpreting oligonucleotide microarray data to determine RNA secondary structure: Application to the 3end of Bombyx mori R2 RNA. Biochemistry, 45, 9819-9832.
-
(2006)
Biochemistry
, vol.45
, pp. 9819-9832
-
-
Duan, S.H.1
Mathews, D.H.2
Turner, D.H.3
-
32
-
-
73149101873
-
Binding of short oligonucleotides to RNA: Studies of the binding of common RNA structural motifs to isoenergetic microarrays
-
Kierzek,E. (2009) Binding of short oligonucleotides to RNA: studies of the binding of common RNA structural motifs to isoenergetic microarrays. Biochemistry, 48, 11344-11356.
-
(2009)
Biochemistry
, vol.48
, pp. 11344-11356
-
-
Kierzek, E.1
-
33
-
-
72749087587
-
Isoenergetic microarray mapping reveals differences in structure between tRNAi Met and tRNAm Met from Lupinus luteus
-
Kierzek,E., Barciszewska,M.Z. and Barciszewski,J. (2008) Isoenergetic microarray mapping reveals differences in structure between tRNAi Met and tRNAm Met from Lupinus luteus. Nucleic Acids Symp. Ser., 52, 215-216.
-
(2008)
Nucleic Acids Symp. Ser.
, vol.52
, pp. 215-216
-
-
Kierzek, E.1
Barciszewska, M.Z.2
Barciszewski, J.3
-
34
-
-
67549143784
-
Secondary structures for 5regions of R2 retrotranspozon RNAs reveal a novel conserved pseudoknot and regions that evolve under different constraints
-
Kierzek,E., Christensen,S.M., Eickbush,T.H., Kierzek,R., Turner,D.H. and Moss,W.N. (2009) Secondary structures for 5regions of R2 retrotranspozon RNAs reveal a novel conserved pseudoknot and regions that evolve under different constraints. J. Mol. Biol., 390, 428-442.
-
(2009)
J. Mol. Biol.
, vol.390
, pp. 428-442
-
-
Kierzek, E.1
Christensen, S.M.2
Eickbush, T.H.3
Kierzek, R.4
Turner, D.H.5
Moss, W.N.6
-
35
-
-
84945179032
-
Isoenergetic RNA microarrays, a new method to study the structure and interactions of RNA
-
Italy
-
Kierzek,E., Fratczak,A., Pasternak,A., Turner,D.H. and Kierzek,R. (2007) Isoenergetic RNA microarrays, a new method to study the structure and interactions of RNA. Int. Proc. Division, Medimond, Bologna, Italy, pp. 25-30.
-
(2007)
Int. Proc. Division, Medimond, Bologna
, pp. 25-30
-
-
Kierzek, E.1
Fratczak, A.2
Pasternak, A.3
Turner, D.H.4
Kierzek, R.5
-
36
-
-
38849104099
-
Isoenergetic penta-and hexanucleotide microarray probing and chemical mapping provide a secondary structure model for an RNA element orchestrating R2 retrotransposon protein function
-
Kierzek,E., Kierzek,R., Moss,W.N., Christensen,S.M., Eickbush,T.H. and Turner,D.H. (2008) Isoenergetic penta-and hexanucleotide microarray probing and chemical mapping provide a secondary structure model for an RNA element orchestrating R2 retrotransposon protein function. Nucleic Acids Res., 36, 1770-1782.
-
(2008)
Nucleic Acids Res.
, vol.36
, pp. 1770-1782
-
-
Kierzek, E.1
Kierzek, R.2
Moss, W.N.3
Christensen, S.M.4
Eickbush, T.H.5
Turner, D.H.6
-
37
-
-
30744443824
-
Facilitating RNA structure prediction with microarrays
-
Kierzek,E., Kierzek,R., Turner,D.H. and Catrina,I.E. (2006) Facilitating RNA structure prediction with microarrays. Biochemistry, 45, 581-593.
-
(2006)
Biochemistry
, vol.45
, pp. 581-593
-
-
Kierzek, E.1
Kierzek, R.2
Turner, D.H.3
Catrina, I.E.4
-
38
-
-
33746488366
-
Nearest neighbor parameters for Watson-Crick complementary heteroduplexes formed between 2-O-methyl RNA and RNA oligonucleotides
-
Kierzek,E., Mathews,D.H., Ciesielska,A., Turner,D.H. and Kierzek,R. (2006) Nearest neighbor parameters for Watson-Crick complementary heteroduplexes formed between 2-O-methyl RNA and RNA oligonucleotides. Nucleic Acids Res., 34, 3609-3614.
-
(2006)
Nucleic Acids Res.
, vol.34
, pp. 3609-3614
-
-
Kierzek, E.1
Mathews, D.H.2
Ciesielska, A.3
Turner, D.H.4
Kierzek, R.5
-
39
-
-
0032552882
-
Thermodynamic parameters for an expanded nearest-neighbor model for formation of RNA duplexes with Watson-Crick base pairs
-
Xia,T.B., SantaLucia,J., Burkard,M.E., Kierzek,R., Schroeder,S.J., Jiao,X.Q., Cox,C. and Turner,D.H. (1998) Thermodynamic parameters for an expanded nearest-neighbor model for formation of RNA duplexes with Watson-Crick base pairs. Biochemistry, 37, 14719-14735.
-
(1998)
Biochemistry
, vol.37
, pp. 14719-14735
-
-
Xia, T.B.1
SantaLucia, J.2
Burkard, M.E.3
Kierzek, R.4
Schroeder, S.J.5
Jiao, X.Q.6
Cox, C.7
Turner, D.H.8
-
40
-
-
0029134549
-
Thermodynamic parameters to predict stability of RNA/DNA hybrid duplexes
-
Sugimoto,N., Nakano,S., Katoh,M., Matsumura,A., Nakamuta,H., Ohmichi,T., Yoneyama,M. and Sasaki,M. (1995) Thermodynamic parameters to predict stability of RNA/DNA hybrid duplexes. Biochemistry, 34, 11211-11216.
-
(1995)
Biochemistry
, vol.34
, pp. 11211-11216
-
-
Sugimoto, N.1
Nakano, S.2
Katoh, M.3
Matsumura, A.4
Nakamuta, H.5
Ohmichi, T.6
Yoneyama, M.7
Sasaki, M.8
-
41
-
-
0042121256
-
Mfold web server for nucleic acid folding and hybridization prediction
-
Zuker,M. (2003) Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res., 31, 3406-3415.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 3406-3415
-
-
Zuker, M.1
-
42
-
-
77949447172
-
RNAstructure: Software for RNA secondary structure prediction and analysis
-
Reuter,J.S. and Mathews,D.H. (2010) RNAstructure: software for RNA secondary structure prediction and analysis. BMC Bioinformatics, 11, 129.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 129
-
-
Reuter, J.S.1
Mathews, D.H.2
-
43
-
-
0036224052
-
Effects of magnesium ions on the stabilization of RNA oligomers of defined structures
-
Serra,M.J., Baird,J.D., Dale,T., Fey,B.L., Retatagos,K. and Westhof,E. (2002) Effects of magnesium ions on the stabilization of RNA oligomers of defined structures. RNA, 8, 307-323.
-
(2002)
RNA
, vol.8
, pp. 307-323
-
-
Serra, M.J.1
Baird, J.D.2
Dale, T.3
Fey, B.L.4
Retatagos, K.5
Westhof, E.6
-
44
-
-
0026580484
-
Different conformational forms of Escherichia coli and rat-liver 5S ribosomal-RNA revealed by Pb(II) induced hydrolysis
-
Ciesiolka,J., Lorenz,S. and Erdmann,V.A. (1992) Different conformational forms of Escherichia coli and rat-liver 5S ribosomal-RNA revealed by Pb(II) induced hydrolysis. Eur. J. Biochem., 204, 583-589.
-
(1992)
Eur. J. Biochem.
, vol.204
, pp. 583-589
-
-
Ciesiolka, J.1
Lorenz, S.2
Erdmann, V.A.3
-
45
-
-
0025898423
-
Higher-order structure of the ribosomal 5S RNA
-
Nazar,R.N. (1991) Higher-order structure of the ribosomal 5S RNA. J. Biol. Chem., 266, 4562-4567.
-
(1991)
J. Biol. Chem.
, vol.266
, pp. 4562-4567
-
-
Nazar, R.N.1
-
46
-
-
0023040892
-
Free-energy contributions of G-U and other terminal mismatches to helix stability
-
Freier,S.M., Kierzek,R., Caruthers,M.H., Neilson,T. and Turner,D.H. (1986) Free-energy contributions of G-U and other terminal mismatches to helix stability. Biochemistry, 25, 3209-3213.
-
(1986)
Biochemistry
, vol.25
, pp. 3209-3213
-
-
Freier, S.M.1
Kierzek, R.2
Caruthers, M.H.3
Neilson, T.4
Turner, D.H.5
-
47
-
-
84860124319
-
Testing the nearest neighbor model for canonical RNA base pairs: Revision of GU parameters
-
Chen,J.L., Dishler,A.L., Kennedy,S.D., Yildirim,I., Liu,B., Turner,D.H. and Serra,M.J. (2012) Testing the nearest neighbor model for canonical RNA base pairs: revision of GU parameters. Biochemistry, 51, 3508-3522.
-
(2012)
Biochemistry
, vol.51
, pp. 3508-3522
-
-
Chen, J.L.1
Dishler, A.L.2
Kennedy, S.D.3
Yildirim, I.4
Liu, B.5
Turner, D.H.6
Serra, M.J.7
-
48
-
-
0023055766
-
Energetics of internal GU mismatches in ribooligonucleotide helixes
-
Sugimoto,N., Kierzek,R., Freier,S.M. and Turner,D.H. (1986) Energetics of internal GU mismatches in ribooligonucleotide helixes. Biochemistry, 25, 5755-5759.
-
(1986)
Biochemistry
, vol.25
, pp. 5755-5759
-
-
Sugimoto, N.1
Kierzek, R.2
Freier, S.M.3
Turner, D.H.4
-
49
-
-
0033554848
-
Thermodynamics of RNA-RNA duplexes with 2-or 4-thiouridines: Implications for antisense design and targeting a group i intron
-
Testa,S.M., Disney,M.D., Turner,D.H. and Kierzek,R. (1999) Thermodynamics of RNA-RNA duplexes with 2-or 4-thiouridines: Implications for antisense design and targeting a group I intron. Biochemistry, 38, 16655-16662.
-
(1999)
Biochemistry
, vol.38
, pp. 16655-16662
-
-
Testa, S.M.1
Disney, M.D.2
Turner, D.H.3
Kierzek, R.4
-
50
-
-
72749109346
-
Chemical synthesis of LNA-2-thiouridine and its influence on stability and selectivity of oligonucleotide binding to RNA
-
Carlucci,M., Kierzek,E., Olejnik,A., Turner,D.H. and Kierzek,R. (2009) Chemical synthesis of LNA-2-thiouridine and its influence on stability and selectivity of oligonucleotide binding to RNA. Biochemistry, 48, 10882-10893.
-
(2009)
Biochemistry
, vol.48
, pp. 10882-10893
-
-
Carlucci, M.1
Kierzek, E.2
Olejnik, A.3
Turner, D.H.4
Kierzek, R.5
-
51
-
-
25144497136
-
The influence of locked nucleic acid residues on the thermodynamic properties of 2-O-methyl RNA/RNA heteroduplexes
-
Kierzek,E., Ciesielska,A., Pasternak,K., Mathews,D.H., Turner,D.H. and Kierzek,R. (2005) The influence of locked nucleic acid residues on the thermodynamic properties of 2-O-methyl RNA/RNA heteroduplexes. Nucleic Acids Res., 33, 5082-5093.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 5082-5093
-
-
Kierzek, E.1
Ciesielska, A.2
Pasternak, K.3
Mathews, D.H.4
Turner, D.H.5
Kierzek, R.6
-
52
-
-
0032473890
-
LNA (Locked Nucleic Acids): Synthesis of the adenine, cytosine, guanine, 5-methylcytosine, thymine and uracil bicyclonucleoside monomers, oligomerisation, and unprecedented nucleic acid recognition
-
Koshkin,A.A., Singh,S.K., Nielsen,P., Rajwanshi,V.K., Kumar,R., Meldgaard,M., Olsen,C.E. and Wengel,J. (1998) LNA (Locked Nucleic Acids): Synthesis of the adenine, cytosine, guanine, 5-methylcytosine, thymine and uracil bicyclonucleoside monomers, oligomerisation, and unprecedented nucleic acid recognition. Tetrahedron, 54, 3607-3630.
-
(1998)
Tetrahedron
, vol.54
, pp. 3607-3630
-
-
Koshkin, A.A.1
Singh, S.K.2
Nielsen, P.3
Rajwanshi, V.K.4
Kumar, R.5
Meldgaard, M.6
Olsen, C.E.7
Wengel, J.8
-
53
-
-
0030862285
-
Synthesis of 2-O,4-C-methyleneuridine and-cytidine Novel bicyclic nucleosides having a fixed C-3-endo sugar puckering
-
Obika,S., Nanbu,D., Hari,Y., Morio,K., In,Y., Ishida,T. and Imanishi,T. (1997) Synthesis of 2-O,4-C-methyleneuridine and-cytidine. Novel bicyclic nucleosides having a fixed C-3-endo sugar puckering. Tetrahedron Lett., 38, 8735-8738.
-
(1997)
Tetrahedron Lett.
, vol.38
, pp. 8735-8738
-
-
Obika, S.1
Nanbu, D.2
Hari, Y.3
Morio, K.4
In, Y.5
Ishida, T.6
Imanishi, T.7
-
54
-
-
11144320781
-
Chemistry of locked nucleic acids (LNA): Design, synthesis, and biophysical properties
-
Wengel,J., Petersen,M., Frieden,M. and Koch,T. (2003) Chemistry of locked nucleic acids (LNA): Design, synthesis, and biophysical properties. Lett. Pept. Sci., 10, 237-253.
-
(2003)
Lett. Pept. Sci.
, vol.10
, pp. 237-253
-
-
Wengel, J.1
Petersen, M.2
Frieden, M.3
Koch, T.4
-
55
-
-
34547619754
-
A chemical synthesis of LNA-2,6-diaminopurine riboside, and the influence of 2-O-methyl-2,6-diaminopurine and LNA-2,6-diaminopurine ribosides on the thermodynamic properties of 2-O-methyl RNA/RNA heteroduplexes
-
Pasternak,A., Kierzek,E., Pasternak,K., Turner,D.H. and Kierzek,R. (2007) A chemical synthesis of LNA-2,6-diaminopurine riboside, and the influence of 2-O-methyl-2,6-diaminopurine and LNA-2,6-diaminopurine ribosides on the thermodynamic properties of 2-O-methyl RNA/RNA heteroduplexes. Nucleic Acids Res., 35, 4055-4063.
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 4055-4063
-
-
Pasternak, A.1
Kierzek, E.2
Pasternak, K.3
Turner, D.H.4
Kierzek, R.5
-
56
-
-
38849169886
-
The thermodynamics of 3-terminal pyrene and guanosine for the design of isoenergetic 2-O-methyl-RNA-LNA chimeric oligonucleotide probes of RNA structure
-
Pasternak,A., Kierzek,E., Pasternak,K., Fratczak,A., Turner,D.H. and Kierzek,R. (2008) The thermodynamics of 3-terminal pyrene and guanosine for the design of isoenergetic 2-O-methyl-RNA-LNA chimeric oligonucleotide probes of RNA structure. Biochemistry, 47, 1249-1258.
-
(2008)
Biochemistry
, vol.47
, pp. 1249-1258
-
-
Pasternak, A.1
Kierzek, E.2
Pasternak, K.3
Fratczak, A.4
Turner, D.H.5
Kierzek, R.6
-
57
-
-
0029760264
-
Regioselective immobilization of short oligonucleotides to acrylic copolymer gels
-
Timofeev,E.N., Kochetkova,S.V.,Mirzabekov,A.D. and Florentiev,V.L. (1996) Regioselective immobilization of short oligonucleotides to acrylic copolymer gels. Nucleic Acids Res., 24, 3142-3148.
-
(1996)
Nucleic Acids Res.
, vol.24
, pp. 3142-3148
-
-
Timofeev, E.N.1
Kochetkova, S.V.2
Mirzabekov, A.D.3
Florentiev, V.L.4
-
58
-
-
0035875122
-
Binding specificity and stability of duplexes formed by modified oligonucleotides with a 4096-hexanucleotide microarray
-
Timofeev,E. and Mirzabekov,A. (2001) Binding specificity and stability of duplexes formed by modified oligonucleotides with a 4096-hexanucleotide microarray. Nucleic Acids Res., 29, 2626-2634.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 2626-2634
-
-
Timofeev, E.1
Mirzabekov, A.2
-
59
-
-
48749083055
-
NMR-assisted prediction of RNA secondary structure: Identification of a probable pseudoknot in the coding region of an R2 Retrotransposon
-
Hart,J.M., Kennedy,S.D., Mathews,D.H. and Turner,D.H. (2008) NMR-assisted prediction of RNA secondary structure: Identification of a probable pseudoknot in the coding region of an R2 Retrotransposon. J. Am. Chem. Soc., 130, 10233-10239.
-
(2008)
J. Am. Chem. Soc.
, vol.130
, pp. 10233-10239
-
-
Hart, J.M.1
Kennedy, S.D.2
Mathews, D.H.3
Turner, D.H.4
-
60
-
-
57649129010
-
3terminal nucleotides determine thermodynamic stabilities of mismatches at the ends of RNA helices
-
Clanton-Arrowood,K.,McGurk,J. and Schroeder,S.J. (2008) 3terminal nucleotides determine thermodynamic stabilities of mismatches at the ends of RNA helices. Biochemistry, 47, 13418-13427.
-
(2008)
Biochemistry
, vol.47
, pp. 13418-13427
-
-
Clanton-Arrowood, K.1
McGurk, J.2
Schroeder, S.J.3
-
61
-
-
0037019539
-
Long RNA dangling end has large energetic contribution to duplex stability
-
Ohmichi,T., Nakano,S., Miyoshi,D. and Sugimoto,N. (2002) Long RNA dangling end has large energetic contribution to duplex stability. J. Am. Chem. Soc., 124, 10367-10372.
-
(2002)
J. Am. Chem. Soc.
, vol.124
, pp. 10367-10372
-
-
Ohmichi, T.1
Nakano, S.2
Miyoshi, D.3
Sugimoto, N.4
-
62
-
-
77956592559
-
Comparisons between chemical mapping and binding to isoenergetic oligonucleotide microarrays reveal unexpected patterns of binding to the Bacillus subtilis RNase P RNA specificity domain
-
Liang,R.T., Kierzek,E., Kierzek,R. and Turner,D.H. (2010) Comparisons between chemical mapping and binding to isoenergetic oligonucleotide microarrays reveal unexpected patterns of binding to the Bacillus subtilis RNase P RNA specificity domain. Biochemistry, 49, 8155-8168.
-
(2010)
Biochemistry
, vol.49
, pp. 8155-8168
-
-
Liang, R.T.1
Kierzek, E.2
Kierzek, R.3
Turner, D.H.4
-
63
-
-
70350636199
-
Isoenergetic microarray mapping-The advantage of this method in studying the structure of Saccharomyces cerevisiae tRNAPhe
-
Jenek,M. and Kierzek,E. (2008) Isoenergetic microarray mapping-the advantage of this method in studying the structure of Saccharomyces cerevisiae tRNAPhe. Nucleic Acids Symp. Ser., 52, 219-220.
-
(2008)
Nucleic Acids Symp. Ser.
, vol.52
, pp. 219-220
-
-
Jenek, M.1
Kierzek, E.2
-
64
-
-
0037434709
-
Crystal structure of the specificity domain of ribonuclease P
-
Krasilnikov,A.S., Yang,X.J., Pan,T. and Mondragon,A. (2003) Crystal structure of the specificity domain of ribonuclease P. Nature, 421, 760-764.
-
(2003)
Nature
, vol.421
, pp. 760-764
-
-
Krasilnikov, A.S.1
Yang, X.J.2
Pan, T.3
Mondragon, A.4
-
65
-
-
0037205458
-
In vitro evidence that the untranslated leader of the HIV-1 genome is an RNA checkpoint that regulates multiple functions through conformational changes
-
Berkhout,B., Ooms,M., Beerens,N., Huthoff,H., Southern,E. and Verhoef,K. (2002) In vitro evidence that the untranslated leader of the HIV-1 genome is an RNA checkpoint that regulates multiple functions through conformational changes. J. Biol. Chem., 277, 19967-19975.
-
(2002)
J. Biol. Chem.
, vol.277
, pp. 19967-19975
-
-
Berkhout, B.1
Ooms, M.2
Beerens, N.3
Huthoff, H.4
Southern, E.5
Verhoef, K.6
-
66
-
-
84906228043
-
Secondary structure of a conserved domain in an intron of influenza A M1 mRNA
-
Jiang,T., Kennedy,S.D., Moss,W.N., Kierzek,E. and Turner,D.H. (2014) Secondary structure of a conserved domain in an intron of influenza A M1 mRNA. Biochemistry, 53, 5236-5248.
-
(2014)
Biochemistry
, vol.53
, pp. 5236-5248
-
-
Jiang, T.1
Kennedy, S.D.2
Moss, W.N.3
Kierzek, E.4
Turner, D.H.5
-
67
-
-
84862003023
-
The 3splice site of influenza a segment 7 mRNA can exist in two conformations: A pseudoknot and a hairpin
-
Moss,W.N., Dela-Moss,L.I., Kierzek,E., Kierzek,R., Priore,S.F. and Turner,D.H. (2012) The 3splice site of influenza a segment 7 mRNA can exist in two conformations: a pseudoknot and a hairpin. Plos One, 7, e38233.
-
(2012)
Plos One
, vol.7
, pp. e38233
-
-
Moss, W.N.1
Dela-Moss, L.I.2
Kierzek, E.3
Kierzek, R.4
Priore, S.F.5
Turner, D.H.6
-
68
-
-
84875201357
-
The influenza A segment 7 mRNA 3splice site pseudoknot/hairpin family
-
Moss,W.N., Dela-Moss,L.I., Priore,S.F. and Turner,D.H. (2012) The influenza A segment 7 mRNA 3splice site pseudoknot/hairpin family. RNA Biol., 9, 1305-1310.
-
(2012)
RNA Biol.
, vol.9
, pp. 1305-1310
-
-
Moss, W.N.1
Dela-Moss, L.I.2
Priore, S.F.3
Turner, D.H.4
-
69
-
-
84892832702
-
Secondary structure of a conserved domain in the intron of influenza A NS1 mRNA
-
Priore,S.F., Kierzek,E., Kierzek,R., Baman,J.R., Moss,W.N., Dela-Moss,L.I. and Turner,D.H. (2013) Secondary structure of a conserved domain in the intron of influenza A NS1 mRNA. Plos One, 8, e70615.
-
(2013)
Plos One
, vol.8
, pp. e70615
-
-
Priore, S.F.1
Kierzek, E.2
Kierzek, R.3
Baman, J.R.4
Moss, W.N.5
Dela-Moss, L.I.6
Turner, D.H.7
-
70
-
-
0037143493
-
Multiple secondary structure rearrangements during HIV-1 RNA dimerization
-
Huthoff,H. and Berkhout,B. (2002) Multiple secondary structure rearrangements during HIV-1 RNA dimerization. Biochemistry, 41, 10439-10445.
-
(2002)
Biochemistry
, vol.41
, pp. 10439-10445
-
-
Huthoff, H.1
Berkhout, B.2
-
71
-
-
79956225207
-
Identification of potential conserved RNA secondary structure throughout influenza A coding regions
-
Moss,W.N., Priore,S.F. and Turner,D.H. (2011) Identification of potential conserved RNA secondary structure throughout influenza A coding regions. RNA, 17, 991-1011.
-
(2011)
RNA
, vol.17
, pp. 991-1011
-
-
Moss, W.N.1
Priore, S.F.2
Turner, D.H.3
-
72
-
-
34447507937
-
Effect of base modifications on structure, thermodynamic stability, and gene silencing activity of short interfering RNA
-
Sipa,K., Sochacka,E., Kazmierczak-Baranska,J., Maszewska,M., Janicka,M., Nowak,G. and Nawrot,B. (2007) Effect of base modifications on structure, thermodynamic stability, and gene silencing activity of short interfering RNA. RNA, 13, 1301-1316.
-
(2007)
RNA
, vol.13
, pp. 1301-1316
-
-
Sipa, K.1
Sochacka, E.2
Kazmierczak-Baranska, J.3
Maszewska, M.4
Janicka, M.5
Nowak, G.6
Nawrot, B.7
-
73
-
-
0032529298
-
N-2-methylguanosine is iso-energetic with guanosine in RNA duplexes and GNRA tetraloops
-
Rife,J.P., Cheng,C.S., Moore,P.B. and Strobel,S.A. (1998) N-2-methylguanosine is iso-energetic with guanosine in RNA duplexes and GNRA tetraloops. Nucleic Acids Res., 26, 3640-3644.
-
(1998)
Nucleic Acids Res.
, vol.26
, pp. 3640-3644
-
-
Rife, J.P.1
Cheng, C.S.2
Moore, P.B.3
Strobel, S.A.4
-
74
-
-
77953652658
-
The crystal structure of unmodified tRNA(Phe) from Escherichia coli
-
Byrne,R.T., Konevega,A.L., Rodnina,M.V. and Antson,A.A. (2010) The crystal structure of unmodified tRNA(Phe) from Escherichia coli. Nucleic Acids Res., 38, 4154-4162.
-
(2010)
Nucleic Acids Res.
, vol.38
, pp. 4154-4162
-
-
Byrne, R.T.1
Konevega, A.L.2
Rodnina, M.V.3
Antson, A.A.4
-
75
-
-
0029784336
-
Effect of modified nucleotides on structure of yeast tRNA(Phe) Comparative studies by metal ion-induced hydrolysis and nuclease mapping
-
Michalowski,D.,Wrzesinski,J., Ciesiolka,J. and Krzyzosiak,W.J. (1996) Effect of modified nucleotides on structure of yeast tRNA(Phe). Comparative studies by metal ion-induced hydrolysis and nuclease mapping. Biochimie, 78, 131-138.
-
(1996)
Biochimie
, vol.78
, pp. 131-138
-
-
Michalowski, D.1
Wrzesinski, J.2
Ciesiolka, J.3
Krzyzosiak, W.J.4
-
76
-
-
0023953676
-
Biochemical and physical characterization of an unmodified yeast phenylalanine transfer-RNA transcribed in vitro
-
U.S.A.
-
Sampson,J.R. and Uhlenbeck,O.C. (1988) Biochemical and physical characterization of an unmodified yeast phenylalanine transfer-RNA transcribed in vitro. Proc. Natl. Acad. Sci. U.S.A., 85, 1033-1037.
-
(1988)
Proc. Natl. Acad. Sci.
, vol.85
, pp. 1033-1037
-
-
Sampson, J.R.1
Uhlenbeck, O.C.2
-
77
-
-
80052234775
-
Isoenergetic microarrays to study the structure and interactions of DsrA and OxyS RNAs in two-and three-component complexes
-
Fratczak,A., Kierzek,R. and Kierzek,E. (2011) Isoenergetic microarrays to study the structure and interactions of DsrA and OxyS RNAs in two-and three-component complexes. Biochemistry, 50, 7647-7665.
-
(2011)
Biochemistry
, vol.50
, pp. 7647-7665
-
-
Fratczak, A.1
Kierzek, R.2
Kierzek, E.3
-
78
-
-
0034730125
-
A trans-acting RNA as a control switch in Escherichia coli: DsrA modulates function by forming alternative structures
-
U.S.A.
-
Lease,R.A. and Belfort,M. (2000) A trans-acting RNA as a control switch in Escherichia coli: DsrA modulates function by forming alternative structures. Proc. Natl. Acad. Sci. U.S.A., 97, 9919-9924.
-
(2000)
Proc. Natl. Acad. Sci.
, vol.97
, pp. 9919-9924
-
-
Lease, R.A.1
Belfort, M.2
-
79
-
-
33646345371
-
Evaluation of the dynamic structure of DsrA RNA from e coli and its functional consequences
-
Rolle,K., Zywicki,M., Wyszko,E., Barciszewska,M.Z. and Barciszewski,J. (2006) Evaluation of the dynamic structure of DsrA RNA from E.coli and its functional consequences. J. Biochem., 139, 431-438.
-
(2006)
J. Biochem.
, vol.139
, pp. 431-438
-
-
Rolle, K.1
Zywicki, M.2
Wyszko, E.3
Barciszewska, M.Z.4
Barciszewski, J.5
-
80
-
-
9244253711
-
Cycling of the Sm-like protein Hfq on the DsrA small regulatory RNA
-
Lease,R.A. and Woodson,S.A. (2004) Cycling of the Sm-like protein Hfq on the DsrA small regulatory RNA. J. Mol. Biol., 344, 1211-1223.
-
(2004)
J. Mol. Biol.
, vol.344
, pp. 1211-1223
-
-
Lease, R.A.1
Woodson, S.A.2
-
81
-
-
37049017614
-
Isostable DNA
-
Ahlborn,C., Siegmund,K. and Richert,C. (2007) Isostable DNA. J. Am. Chem. Soc., 129, 15218-15232.
-
(2007)
J. Am. Chem. Soc.
, vol.129
, pp. 15218-15232
-
-
Ahlborn, C.1
Siegmund, K.2
Richert, C.3
-
82
-
-
0029968822
-
Improved nearest-neighbor parameters for predicting DNA duplex stability
-
SantaLucia,J., Allawi,H.T. and Seneviratne,A. (1996) Improved nearest-neighbor parameters for predicting DNA duplex stability. Biochemistry, 35, 3555-3562.
-
(1996)
Biochemistry
, vol.35
, pp. 3555-3562
-
-
SantaLucia, J.1
Allawi, H.T.2
Seneviratne, A.3
-
83
-
-
84861539803
-
Mapping targetable sites on human telomerase RNA pseudoknot/template domain using 2-OMe RNA-interacting polynucleotide (RIPtide) microarrays
-
Gude,L., Berkovitch,S.S., Santos,W.L., Kutchukian,P.S., Pawloski,A.R., Kuimelis,R., McGall,G. and Verdine,G.L. (2012) Mapping targetable sites on human telomerase RNA pseudoknot/template domain using 2-OMe RNA-interacting polynucleotide (RIPtide) microarrays. J. Biol. Chem., 287, 18843-18853.
-
(2012)
J. Biol. Chem.
, vol.287
, pp. 18843-18853
-
-
Gude, L.1
Berkovitch, S.S.2
Santos, W.L.3
Kutchukian, P.S.4
Pawloski, A.R.5
Kuimelis, R.6
McGall, G.7
Verdine, G.L.8
-
84
-
-
84877357906
-
Long-range architecture in a viral RNA genome
-
Archer,E.J., Simpson,M.A., Watts,N.J., O'Kane,R., Wang,B., Erie,D.A., McPherson,A. and Weeks,K.M. (2013) Long-range architecture in a viral RNA genome. Biochemistry, 52, 3182-3190.
-
(2013)
Biochemistry
, vol.52
, pp. 3182-3190
-
-
Archer, E.J.1
Simpson, M.A.2
Watts, N.J.3
O'Kane, R.4
Wang, B.5
Erie, D.A.6
McPherson, A.7
Weeks, K.M.8
-
85
-
-
80052494580
-
Ensemble of secondary structures for encapsidated satellite Tobacco Mosaic Virus RNA consistent with chemical probing and crystallography constraints
-
Schroeder,S.J., Stone,J.W., Bleckley,S., Gibbons,T. and Mathews,D.M. (2011) Ensemble of secondary structures for encapsidated satellite Tobacco Mosaic Virus RNA consistent with chemical probing and crystallography constraints. Biophys. J., 101, 167-175.
-
(2011)
Biophys. J.
, vol.101
, pp. 167-175
-
-
Schroeder, S.J.1
Stone, J.W.2
Bleckley, S.3
Gibbons, T.4
Mathews, D.M.5
-
86
-
-
84920819299
-
Probing viral genomic structure: Alternative viewpoints and alternative structures for Satellite Tabacco Mosaic Virus RNA
-
Schroeder,S.J. (2014) Probing viral genomic structure: alternative viewpoints and alternative structures for Satellite Tabacco Mosaic Virus RNA. Biochemistry, 53, 6728-6737.
-
(2014)
Biochemistry
, vol.53
, pp. 6728-6737
-
-
Schroeder, S.J.1
-
87
-
-
0141632990
-
Interferometric sensing of biomolecular binding using nanoporous aluminum oxide templates
-
Pan,S.L. and Rothberg,L.J. (2003) Interferometric sensing of biomolecular binding using nanoporous aluminum oxide templates. Nano Lett., 3, 811-814.
-
(2003)
Nano Lett.
, vol.3
, pp. 811-814
-
-
Pan, S.L.1
Rothberg, L.J.2
-
88
-
-
84863115828
-
An aptamer based on-plate microarray for high-throughput insulin detection by MALDI-TOF MS
-
Zhang,X.Y., Zhu,S.C., Deng,C.H. and Zhang,X.M. (2012) An aptamer based on-plate microarray for high-throughput insulin detection by MALDI-TOF MS. Chem. Commun., 48, 2689-2691.
-
(2012)
Chem. Commun.
, vol.48
, pp. 2689-2691
-
-
Zhang, X.Y.1
Zhu, S.C.2
Deng, C.H.3
Zhang, X.M.4
|